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1. Diversity and carbon storage across the tropical forest biome

Author: Connie J. Clark, Kofi Affum-Baffoe, Lan Qie, Timothy R. Baker, Abel Monteagudo-Mendoza, Lise Zemagho, Yadvinder Malhi, Javier Silva Espejo, Patricia Alvarez-Loayza, Lindsay F. Banin, Jefferson S. Hall, Ima Célia Guimarães Vieira, H. Priyadi, Jérôme Chave, Fernando Cornejo Valverde, Peter M. Umunay, J. W. Ferry Slik, Martin Gilpin, Ana Andrade, Andrew R. Marshall, Alvaro Cogollo Pacheco, Bonaventure Sonké, Rodrigo Sierra, Jan Bogaert, Emanuel Gloor, Christopher Baraloto, Guido Pardo, Nicholas J. Berry, Simon L. Lewis, Georgia Pickavance, Axel Dalberg Poulsen, Ismayadi Samsoedin, Vincent A. Vos, Carlos Cerón, Jean-Louis Doucet, Peter S. Ashton, William F. Laurance, Wannes Hubau, Thomas E. Lovejoy, Eric Chezeaux, Zorayda Restrepo, Aida Cuni-Sanchez, Kanehiro Kitayama, Everton Cristo de Almeida, Luiz E. O. C. Aragão, Sophie Fauset, Nadir Pallqui Camacho, Jan Reitsma, Corneille E. N. Ewango, Percy Núñez Vargas, Hans ter Steege, John Terborgh, Roel J. W. Brienen, Jean-François Bastin, Kamariah Abu Salim, Jon C. Lovett, Beatriz Schwantes Marimon, Simon Willcock, Marisol Toledo, Ben Hur Marimon Junior, Serge K. Begne, Greta C. Dargie, Carlos A. Quesada, Terese B. Hart, Martin J. P. Sullivan, Terry Sunderland, Ted R. Feldpausch, Eurídice N. Honorio Coronado, Stuart J. Davies, Lera Miles, Sean C. Thomas, Lip Khoon Kho, Lisa Steel, Jaques Mukinzi, Marie Noel Djuikouo K., Rafael de Paiva Salomão, Terry L. Erwin, Ervan Rutishauser, Edmar Almeida de Oliveira, Rafael Herrera, Shin-ichiro Aiba, Faustin Mpanya Lukasu, Damien Bonal, Sylvester Tan, Esteban Alvarez Dávila, Marielos Peña-Claros, José Luís Camargo, Lee J. T. White, James A. Comiskey, Hermann Taedoumg, Maxime Réjou-Méchain, Pascal Petronelli, Jean-Remy Makana, Ophelia Wang, Richard B. Primack, Gerardo A. Aymard C, Charles De Cannière, Luis Valenzuela Gamarra, Gabriela Lopez-Gonzalez, Leandro Maracahipes, Kuswata Kartawinata, Michael Balinga, Victor Chama Moscoso, Susan G. Laurance, Marcos Silveira, David Harris, Miguel E. Leal, Paulo S. Morandi, John Tshibamba Mukendi, Frans Bongers, Joey Talbot, Douglas Sheil, Reuben Nilus, John R. Poulsen, Oliver L. Phillips, Sch Geog, University of Nottingham, Dept Geog, University College of London [London] (UCL), Plant Systemat & Ecol Lab, Université de Yaoundé, Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées, Centre National de la Recherche Scientifique (CNRS), Instituto Nacional de Pesquisas da Amazônia (INPA), United Nations Environment Programme World Conservation Monitoring Centre, Missouri Botanical Garden (USA), Universidad Nacional San Antonio Abad del Cusco, Center for International Forestry Research (CIFOR), Coll Marine & Environm Sci, James Cook University, Leiden University, Agence Nationale des Parcs Nationaux du Gabon, Ecole de Terrain en Ecologie Tropicale (ECOTROP), Mensurat Unit, Forestry Research Institute of Ghana, Grad Sch Sci & Engn, Kagoshima University, Inst Biodiversidade & Floresta, Universidade Federal do Oeste do Pará, Universidade Federal do Mato Grosso (UFMT), Ctr Trop Conservat, Duke University [Durham], Universidad Nacional de Colombia, Coll Life & Environm Sci, University of Exeter, Dept Organism & Evolutionary Biol, Harvard University [Cambridge], Programa Ciencias Agro & Mar, Herbario Universitario PORT, Ctr Ecol & Hydrol, Dept Biol Sci, Int Ctr Trop Bot, Florida International University (FIU), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud]), Biens et services des écosystèmes forestiers tropicaux : l'enjeu du changement global (Cirad-Es-UPR 105 BSEF), Département Environnements et Sociétés (Cirad-ES), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Sch Geosci, University of Edinburgh, Biodivers & Landscape Unit, Université de Liège, Gembloux Agro-Bio Tech [Gembloux], Ecologie et Ecophysiologie Forestières [devient SILVA en 2018] (EEF), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), Forest Ecol & Forest Management Grp, Wageningen University and Research Centre [Wageningen] (WUR), Projeto Dinam Biol Fragmentos Florestais, Herbario Alfredo Paredes, Universidad Agraria del Ecuador, Rougier Gabon, Nicholas Sch Environm, Duke University, Jardín Botánico de Medellín, Inventory & Monitoring Program, National Park Service, Smithsonian Institution, Andes to Amazon Biodiversity Program, Instituto de Investigaciones de la Amazonía Peruana, Smithsonian Tropical Research Institute, Landscape Ecol & Vegetal Prod Syst Unit, Université Libre de Bruxelles [Bruxelles] (ULB), Dept Bot & Plant Physiol, Fac Sci, University of Buea, Wildlife Conservation Society, Centre de Formation et de Recherche en Conservation Forestière (CEFRECOF), Department of Biology [Copenhagen], Faculty of Science [Copenhagen], University of Copenhagen = Københavns Universitet (KU)-University of Copenhagen = Københavns Universitet (KU), Ctr Ecol, Instituto Venezolano de Investigaciones Cientificas (IVIC), Inst Geog & Reg Forsch, University of Vienna, Royal Botanic Garden Edinburgh, Lukuru Wildlife Res Fdn, Div Vertebrate Zool, National Museum of Natural History, Herbarium Bogoriense, Indonesian Institute of Sciences, Integrat Res Ctr, Field Museum of Natural History [Chicago, USA], Trop Peat Res Inst, Biol Res Div, Malaysian Palm Oil Board, Kyoto University, Ctr Trop Environm & Sustainabil Sci, Coll Sci & Engn, Dept Environm Sci & Policy, George Mason University, Fac Sci Agron, University of Kisangani, Sch Geog & Environm, University of Oxford, Universidade Federal de Goiás [Goiânia] (UFG), Flamingo Land LTD, Dept Environm, CIRCLE, University of York, Salonga Natl Pk, sabah Parks, Universidad Autonoma del Beni, Inst Boliviano Invest Forestal, Ecologie des forêts de Guyane (UMR ECOFOG), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-AgroParisTech-Université de Guyane (UG)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Natural History Museum [Oslo], University of Oslo (UiO), Southern Swedish Forest Res Ctr, Swedish University of Agricultural Sciences (SLU), Bur Waarderburg, Fundación Con-Vida, CarboForExpert, Fac Sci, Environm & Life Sci, University of Brunei Darussalam (Biology Department), Museu Paraense Emílio Goeldi, Forestry Research and Development Agency (FORDA), Norwegian University of Life Sciences (NMBU), Geoinformática y Sistemas , Cia. Ltda (GeoIS), Museu Univ, Universidade Federal do Acre (UFAC), World Wide Fund for Nature, CTFS AA Asia Program, Fac Forestry, University Stefan cel Mare of Suceava (USU), Sch Forestry & Environm Studies, Yale University [New Haven], Centro de Investigación y Promoción del Campesinado Norte Amazónico, Sch Earth Sci & Environm Sustainabil, Northern Arizona University [Flagstaff], Biol Sci, Liverpool John Moore University (ljmu), Sch Environm Nat Resources & Geog, Bangor University, European Research Council (ERC), Gordon and Betty Moore Foundation, David and Lucile Packard Foundation, European Union's Seventh Framework Programme 283080, 282664, Natural Environment Research Council (NERC) Urgency Grants, NERC Consortium Grant 'AMAZONICA' NE/F005806/1, NERC Consortium Grant 'TROBIT' NE/D005590/1, NERC Consortium Grant 'BIO-RED' NE/N012542/1, NERC New Investigators Grant, Royal Society, Centre for International Forestry (CIFOR), Gabon's National Parks Agency (ANPN), NERC PhD Studentship, UNEP-WCMC, NERC research fellowship NE/I021160/1, Royal Society University Research Fellowship ERC Advanced Grant (T-FORCES), Phillip Leverhulme Prize, Royal Society Wolfson Research Merit Award, NERC studentship, RGS-IBG Henrietta Hutton Grant, National Council for Science and Technology Development of Brazil (CNPq) PELD/403725/2012-7, CNPq/PPBio/457602/2012-0, National Council for Science and Technology Development of Brazil (CNPq) Productivity Grant, Leverhulme Trust under the Valuing the Arc project, Missouri Botanical Garden, Sullivan, Martin J. P., Université de Yaoundé I, Universidad Nacional de San Antonio Abad del Cusco (UNSAAC), Consultative Group on International Agricultural Research [CGIAR] (CGIAR), Florida International University [Miami] (FIU), Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Institut National de la Recherche Agronomique (INRA)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD [France-Sud]), Biens et services des écosystèmes forestiers tropicaux : l'enjeu du changement global (UPR BSEF), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Wageningen University and Research [Wageningen] (WUR), Instituto de Investigaciones de la Amazonía Peruana (IIAP), Université libre de Bruxelles (ULB), University of Vienna [Vienna], Indonesian Institute of Sciences (LIPI), University of Oxford [Oxford], Université des Antilles (UA)-Université de Guyane (UG)-Centre National de la Recherche Scientifique (CNRS)-AgroParisTech-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA), Southern Swedish Forest Research Centre, Museu Paraense Emílio Goeldi [Belém, Brésil] (MPEG), Université de Toulouse (UT), James Cook University (JCU), Universiteit Leiden, Agence Nationale des Parcs Nationaux du Gabon (ANPN), Harvard University, University of Copenhagen = Københavns Universitet (UCPH)-University of Copenhagen = Københavns Universitet (UCPH), and Royal Botanic Garden [Edinburgh]
Subjects: 0106 biological sciences, 010504 meteorology & atmospheric sciences, INCREASES, ALPHA-DIVERSITY, [SDV]Life Sciences [q-bio], Biome, Biodiversity, COMPLEMENTARITY, forêt tropicale, Forests, 01 natural sciences, AMAZONIAN FORESTS, Tropic Climate, biodiversité, biomasse aérienne des arbres, conservation des forêts, Tropical climate, stockage du carbone, Biomass (ecology), Multidisciplinary, PRODUCTIVITY, Agroforestry, Ecology, Plants, PE&RC, Classification, Tropical ecology, Chemistry, séquestration du carbone, biome, diversité variétale, protection de la forêt, P01 - Conservation de la nature et ressources foncières, ABOVEGROUND BIOMASS, tropical forest, Asia, F60 - Physiologie et biochimie végétale, TREE ALPHA-DIVERSITY, forêt amazonienne, CONSERVATION, 010603 evolutionary biology, Article, Ecology and Environment, Phénomènes atmosphériques, Forest ecology, Life Science, Bosecologie en Bosbeheer, Forest, AFRICAN RAIN-FORESTS, WOOD PRODUCTION, BIODIVERSITY, CLIMATE, K70 - Dégâts causés aux forêts et leur protection, atténuation des effets du changement climatique, 0105 earth and related environmental sciences, Tropical Climate, Western Hemisphere, TREE SPECIES RICHNESS, Tropics, Plant, 15. Life on land, Forest Ecology and Forest Management, Carbon, biodiversité forestière, DOMINANCE, 13. Climate action, Earth and Environmental Sciences, Africa, Alpha diversity, Americas, structure de la canopée
Abstract: Tropical forests are global centres of biodiversity and carbon storage. Many tropical countries aspire to protect forest to fulfil biodiversity and climate mitigation policy targets, but the conservation strategies needed to achieve these two functions depend critically on the tropical forest tree diversity-carbon storage relationship. Assessing this relationship is challenging due to the scarcity of inventories where carbon stocks in aboveground biomass and species identifications have been simultaneously and robustly quantified. Here, we compile a unique pan-Tropical dataset of 360 plots located in structurally intact old-growth closed-canopy forest, surveyed using standardised methods, allowing a multi-scale evaluation of diversity-carbon relationships in tropical forests. Diversity-carbon relationships among all plots at 1 ha scale across the tropics are absent, and within continents are either weak (Asia) or absent (Amazonia, Africa). A weak positive relationship is detectable within 1 ha plots, indicating that diversity effects in tropical forests may be scale dependent. The absence of clear diversity-carbon relationships at scales relevant to conservation planning means that carbon-centred conservation strategies will inevitably miss many high diversity ecosystems. As tropical forests can have any combination of tree diversity and carbon stocks both require explicit consideration when optimising policies to manage tropical carbon and biodiversity., 0, SCOPUS: ar.j, info:eu-repo/semantics/published
Published: 2017

2. Phylogenetic analysis and systematics of the Acrapex unicolora Hampson species complex (Lepidoptera, Noctuidae, Noctuinae, Apameini), with the description of five new species from the Afrotropics

Author: Rose Ndemah, Gael J. Kergoat, Bruno Le Ru, Boaz K. Musyoka, Beatrice Pallangyo, George Ong’amo, Gilson Chipabika, Mohamedi Njaku, Grégoire Bani, Richard Molo, Onésime Mubenga, Claire Capdevielle-Dulac, Évolution, génomes, comportement et écologie (EGCE), Université Paris-Sud - Paris 11 (UP11)-IRD-Centre National de la Recherche Scientifique (CNRS), UMR 247, Institut de Recherche pour le Développement (IRD [France-Ouest]), Biocontrol Programme, Faculté des Sciences agronomiques, Université du Burundi, International Institute of Tropical Agriculture (IITA-DRC), International Institute of Tropical Agriculture [Nigeria] (IITA), Consultative Group on International Agricultural Research [CGIAR] (CGIAR)-Consultative Group on International Agricultural Research [CGIAR] (CGIAR), Centre de recherches agronomiques de Loudima (CRAL), Namulonge Agricultural and Animal Production Research Institute (NAARI), Sch. Biol. Sci. Coll. Phys. & Biol. Sci., University of Nairobi, Centre de Biologie pour la Gestion des Populations (UMR CBGP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Université de Montpellier (UM)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), UMR Lab Evolut. Genomes Speciat., Centre National de la Recherche Scientifique (CNRS), Université Paris Sud (Paris 11), and International Institute of Tropical Agriculture (IITA)
Subjects: 0106 biological sciences, Systematics, Species complex, Acrapex, [SDV]Life Sciences [q-bio], 010607 zoology, Sesamiina, Apameini, 01 natural sciences, Afrotropical Region, Genus, Botany, Cymbopogon schoenanthus, Ecology, Evolution, Behavior and Systematics, Chrysopogon, biology, biology.organism_classification, Noctuinae, 010602 entomology, QL1-991, QK1-989, Noctuidae, Taxonomy (biology), Zoology
Abstract: Ten morphologically similar species of Acrapex Hampson, 1891 (Lepidoptera, Noctuidae, Noctuinae, Apameini) from Central and Eastern Africa are reviewed, including five new species: Acrapex kafula le Ru sp. nov., A. kavumba le Ru sp. nov., A. kiakouama le Ru sp. nov., A. miscantha le Ru sp. nov. and A. simillima le Ru sp. nov. Evidence is provided to transfer the monotypic genus Poecopa Bowden, 1956 to the genus Acrapex . Host plants of five species are recorded, some of them for the first time. Acrapex kavumba sp. nov., A. miscantha sp. nov. and A. simillima sp. nov. were found on one host plant each. Acrapex mediopuncta , previously reported in West Africa from Pennisetum purpureum Schumach. , Rottboellia compressa L., Setaria megaphylla (Steud) Dur. & Schinz. and Sorghum arundinaceum (Desv.) Stapf, was only found from S. megaphylla in Central Africa. Larvae of Acrapex unicolora were collected on Andropogon gayanus Kunth, Chrysopogon zizanoides (L.) Roberty, Cymbopogon schoenanthus subsp. proximus (Hochst. ex A.Rich.) Maire & Weller, Cymbopogon pospischiilii (K.Schum.) C.E.Hubb. , Hyparrhenia diplandra (Hack.) Stapf and Setaria sphacelata (Schumach.) Moss. We also conducted molecular phylogenetic analyses (using maximum likelihood) and molecular species delimitation analyses on a comprehensive sample of 61 specimens belonging to eight of the studied species. Molecular phylogenetic analyses provided additional evidence of the synonymy of Acrapex and Poecopa , whereas molecular species delimitation analyses support the validity of the five newly described species and unravel another potential new species, only collected in the larval stage.
Published: 2017

3. Warm temperatures induce transgenerational epigenetic release of RNA silencing by inhibiting siRNA biogenesis in Arabidopsis

Author: Junzhong Liu, Joanne Chory, Zuhua He, Yijun Qi, Zhi-Yong Wang, Sihui Zhong, Xiao-Ya Chen, Qun Li, Hua Jin, Ying Chen, Jianming Li, Yuexing Yuan, Hai Huang, Hervé Vaucheret, Lin Lin, Shanghai Inst Biol Sci, Inst Plant Physiol & Ecol, Natl Key Lab Plant Mol Genet, Chinese Academy of Sciences [Beijing] (CAS), Dept Mol Cellular & Dev Biol, University of Michigan [Ann Arbor], University of Michigan System-University of Michigan System, Howard Hughes Med Inst, The Salk Institute for Biological Studies, Natl Inst Biol Sci, Institut Jean-Pierre Bourgin (IJPB), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, National Research Program of China [2011CB100700], National Natural Science Foundation of China [91117018, 30730064], Chinese Academy of Sciences, and National Science Foundation [IOS1121496]
Subjects: 0106 biological sciences, Small interfering RNA, TRANSCRIPTION FACTOR PIF4, FLOWERING TIME, STRESS, [SDV]Life Sciences [q-bio], Molecular Sequence Data, Trans-acting siRNA, Arabidopsis, Biology, Real-Time Polymerase Chain Reaction, INHERITANCE, 01 natural sciences, Epigenesis, Genetic, 03 medical and health sciences, Gene Expression Regulation, Plant, RNA interference, Gene silencing, PLANTS, RNA, Small Interfering, 030304 developmental biology, SUPPRESSION, 2. Zero hunger, Regulation of gene expression, 0303 health sciences, Multidisciplinary, Base Sequence, RECEPTOR, Arabidopsis Proteins, Temperature, High-Throughput Nucleotide Sequencing, RNA, PATHWAYS, Sequence Analysis, DNA, Biological Sciences, VIRUS-RESISTANCE, GENE, Plants, Genetically Modified, Molecular biology, RNA silencing, 13. Climate action, RNA Interference, Protein Kinases, Biogenesis, 010606 plant biology & botany
Abstract: Owing to their sessile nature, plants have evolved sophisticated genetic and epigenetic regulatory systems to respond quickly and reversibly to daily and seasonal temperature changes. However, our knowledge of how plants sense and respond to warming ambient temperatures is rather limited. Here we show that an increase in growth temperature from 22 °C to 30 °C effectively inhibited transgene-induced posttranscriptional gene silencing (PTGS) in Arabidopsis . Interestingly, warmth-induced PTGS release exhibited transgenerational epigenetic inheritance. We discovered that the warmth-induced PTGS release occurred during a critical step that leads to the formation of double-stranded RNA (dsRNA) for producing small interfering RNAs (siRNAs). Deep sequencing of small RNAs and RNA blot analysis indicated that the 22–30 °C increase resulted in a significant reduction in the abundance of many trans -acting siRNAs that require dsRNA for biogenesis. We discovered that the temperature increase reduced the protein abundance of SUPPRESSOR OF GENE SILENCING 3, as a consequence, attenuating the formation of stable dsRNAs required for siRNA biogenesis. Importantly, SUPPRESSOR OF GENE SILENCING 3 overexpression released the warmth-triggered inhibition of siRNA biogenesis and reduced the transgenerational epigenetic memory. Thus, our study reveals a previously undescribed association between warming temperatures, an epigenetic system, and siRNA biogenesis.
Published: 2013

4. The Amborella Genome and the Evolution of Flowering Plants

Author: Albert, Va, Barbazuk, Wb, Depamphilis, Cw, Der, Jp, Leebens Mack, J, Ma, H, Palmer, Jd, Rounsley, S, Sankoff, D, Schuster, Sc, Soltis, De, Soltis, Ps, Wessler, Sr, Wing, Ra, Ammiraju, Js, Chamala, S, Chanderbali, As, Determann, R, Ralph, P, Talag, J, Tomsho, L, Walts, B, Wanke, S, Chang, Th, Lan, T, Arikit, S, Axtell, Mj, Ayyampalayam, S, Burnette JM 3rd, DE PAOLI, Emanuele, Estill, Jc, Farrell, Np, Harkess, A, Jiao, Y, Liu, K, Mei, W, Meyers, Bc, Shahid, S, Wafula, E, Zhai, J, Zhang, X, Carretero Paulet, L, Lyons, E, Tang, H, Zheng, C, Altman, Ns, Chen, F, Chen, Jq, Chiang, V, De Paoli, E, Fogliani, B, Guo, C, Harholt, J, Job, C, Job, D, Kim, S, Kong, H, Li, G, Li, L, Liu, J, Park, J, Qi, X, Rajjou, L, Burtet Sarramegna, V, Sederoff, R, Sun, Yh, Ulvskov, P, Villegente, M, Xue, Jy, Yeh, Tf, Yu, X, Acosta, Jj, Bruenn, Ra, de Kochko, A, Herrera Estrella LR, Ibarra Laclette, E, Kirst, M, Pissis, Sp, Poncet, V, Tomsho, L., Department of Biological Sciences, University at Buffalo [SUNY] (SUNY Buffalo), State University of New York (SUNY)-State University of New York (SUNY), Department of Biology, University of Florida [Gainesville], University of Florida Genetics Institute, Huck Institutes of the Life Sciences [University Park], Intercollege Plant Biology Graduate Program, Pennsylvania State University (Penn State), Penn State System-Penn State System, Center for Comparative Genomics and Bioinformatics, Penn State Univ, Ctr Comparat Genom & Bioinformat, University Pk, PA 16802 USA, Université Paris Diderot - Paris 7 (UPD7), Department of Plant Biology [Athens], University of Georgia [USA], Penn State Univ, Huck Inst Life Sci, University Pk, PA 16802 USA, Penn State Univ, Dept Biol, University Pk, PA 16802 USA, Fudan Univ, Sch Life Sci, State Key Lab Genet Engn, Shanghai 200433, Peoples R China, Fudan Univ, Inst Genet, Inst Plant Biol, Ctr Evolutionary Biol,Inst Biomed Sci, Shanghai 200433, Peoples R China, Indiana Univ, Dept Biol, Bloomington, IN 47405 USA, Univ Arizona, Inst Collaborat Res BIO5, Tucson, AZ 85721 USA, Dow AgroSci, Indianapolis, IN 46268 USA, Univ Arizona, Sch Biol Sci, Tucson, AZ 85721 USA, Department of Mathematics and Statistics, University of Ottawa [Ottawa] (uOttawa), Singapore Ctr Environm Life Sci Engn, Singapore, Singapore, Penn State Univ, Dept Biochem & Mol Biol, University Pk, PA 16802 USA, Florida Museum of Natural History, Department of Botany and Plant Sciences [Riverside], University of California [Riverside] (UCR), University of California-University of California, Univ Arizona, Arizona Genom Inst, Tucson, AZ 85721 USA, Atlanta Bot Garden, Atlanta, GA 30309 USA, Univ Florida, Dept Biol, Gainesville, FL 32611 USA, Tech Univ Dresden, Inst Bot, D-01062 Dresden, Germany, SUNY Buffalo, Dept Biol Sci, Buffalo, NY 14260 USA, Chongqing Univ Sci & Technol, Dept Biol, Chongqing 4000042, Peoples R China, Univ Delaware, Delaware Biotechnol Inst, Newark, DE 19711 USA, Univ Georgia, Dept Plant Biol, Athens, GA 30602 USA, Univ Udine, Dipartimento Sci Agr & Ambientali, I-33100 Udine, Italy, Penn State Univ, Intercoll Plant Biol Grad Program, University Pk, PA 16802 USA, Univ Arizona, iPlant Collaborat, Tucson, AZ 85721 USA, J Craig Venter Inst, Rockville, MD 20850 USA, Univ Ottawa, Dept Math & Stat, Ottawa, ON K1N 6N5, Canada, Penn State Univ, Dept Stat, University Pk, PA 16802 USA, Univ Tennessee, Dept Plant Sci, Knoxville, TN 37996 USA, Nanjing Univ, Sch Life Sci, Nanjing 210093, Jiangsu, Peoples R China, N Carolina State Univ, Dept Forestry & Environm Resources, Raleigh, NC 27695 USA, Institut Agronomique Néo-Calédonien (IAC), Univ New Caledonia, Lab Insulaire Vivant & Environm, Noumea 98851, New Caledonia, Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China, Univ Copenhagen, Dept Plant & Environm Sci, DK-1871 Frederiksberg C, Denmark, Univ Claude Bernard Lyon, Inst Natl Sci Appl Bayer CropSci Joint Lab UMR524, CNRS, Bayer CropSci, F-69263 Lyon 9, France, Sungshin Womens Univ, Basic Sci Res Inst, Seoul 142732, South Korea, Sungshin Womens Univ, Sch Biol Sci & Chem, Seoul 142732, South Korea, Zhejiang Univ, Coll Life Sci, Lab Systemat & Evolutionary Bot & Biodivers, Hangzhou 310058, Zhejiang, Peoples R China, Zhejiang Univ, Coll Life Sci, Key Lab Conservat Biol Endangered Wildlife, Minist Educ, Hangzhou 310058, Zhejiang, Peoples R China, Institut Jean-Pierre Bourgin (IJPB), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Natl Chung Hsing Univ, Dept Forestry, Taichung 40227, Taiwan, Natl Taiwan Univ, Sch Forestry & Resource Conservat, Taipei 10617, Taiwan, Univ Florida, Sch Forest Resources & Conservat, Gainesville, FL 32611 USA, Univ Calif Berkeley, Dept Plant & Microbial Biol, Berkeley, CA 94720 USA, Diversité, adaptation, développement des plantes (UMR DIADE), Institut de Recherche pour le Développement (IRD [France-Sud])-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Lab Nacl Genom Biodiversidad, Irapuato 36821, Mexico, Univ Florida, Genet Inst, Gainesville, FL 32610 USA, Univ Florida, Florida Museum Nat Hist, Gainesville, FL 32611 USA, Heidelberg Inst Theoret Studies, Sci Comp Grp, D-69118 Heidelberg, Germany, NSF Plant Genome Research Program [0922742], NSF, University of Florida [Gainesville] (UF), University of Florida Genetics Institute (UFGI), Center for Comparative Genomics and Bioinformatics (CCBB), Department of Biology [PennState], State Key Laboratory of Genetic Engineering, Fudan University [Shanghai], Institute of Plant Biology [Shanghai], Department of Biology [Bloomington], Indiana University [Bloomington], Indiana University System-Indiana University System, BIO5 - Institute for Collaborative Bioresearch, University of Arizona, Dow AgroSciences LLC, School of Plant Sciences [Tucson], Department of Mathematics and Statistics [Ottawa], University of Ottawa [Ottawa], Singapore Centre for Environmental Life Sciences Engineering [Singapore] (SCELSE), Nanyang Technological University [Singapour], Department of Biochemistry and Molecular Biology [PennState], Arizona Genomics Institute [Tucson], Atlanta Botanical Garden, Department of Biology [Gainesville] (UF|Biology), Institut für Botanik [Dresden], Technische Universität Dresden = Dresden University of Technology (TU Dresden), Department of Biological Sciences [Buffalo], Department of Biology [Chongqing], Chongqing University of Science & Technology, Plant Genome Mapping Laboratory (PGML), Dipartimento di Scienze Agrarie e Ambientali (DiSA), Università degli Studi di Udine - University of Udine [Italie], iPlant Collaborative, J. Craig Venter Institute, Department of Statistics [PennState], Department of Plant Sciences [Knoxville], The University of Tennessee [Knoxville], School of Life Sciences [Nanjing] (SLiS), Nanjing University (NJU), Department of Forestry and Environmental Resources [Raleigh] (FER), North Carolina State University [Raleigh] (NC State), University of North Carolina System (UNC)-University of North Carolina System (UNC), Université de la Nouvelle-Calédonie (UNC), State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany [Beijing] (IB-CAS), Chinese Academy of Sciences [Beijing] (CAS)-Chinese Academy of Sciences [Beijing] (CAS), Department of Plant and Environmental Sciences [Frederiksberg], University of Copenhagen = Københavns Universitet (KU), Microbiologie, adaptation et pathogénie (MAP), Centre National de la Recherche Scientifique (CNRS)-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon, Génomique fonctionnelle des champignons pathogènes des plantes (FungiPath), Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Basic Science Research Institute [Seoul], Sungshin Women's University, School of Biological Sciences and Chemistry [Seoul], Laboratory of Systematic & Evolutionary Botany and Biodiversity, Zhejiang University, Key Laboratory of Conservation Biology for Endangered Wildlife of the Ministry of Education, Department of Forestry [Taichung], National Chung Hsing University (NCHU), School of Forestry and Resource Conservation [Taiwan], National Taïwan University (NTU), School of Forest Resources and Conservation [Gainesville] (UF|IFAS|FFGS), Institute of Food and Agricultural Sciences [Gainesville] (UF|IFAS), University of Florida [Gainesville] (UF)-University of Florida [Gainesville] (UF), Department of Plant and Microbial Biology [Berkeley], University of California [Berkeley], Laboratorio Nacional de Genómica para la Biodiversidad (LANGEBIO), Centro de Investigacion y de Estudios Avanzados del Instituto Politécnico Nacional (CINVESTAV), Florida Museum of Natural History [Gainesville], Heidelberg Institute for Theoretical Studies (HITS ), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud]), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS), and Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL)
Subjects: 0106 biological sciences, Most recent common ancestor, Genetics, Transposable element, 0303 health sciences, education.field_of_study, Multidisciplinary, Lineage (evolution), [SDV]Life Sciences [q-bio], Population, fungi, food and beverages, Biology, 01 natural sciences, Genome, 03 medical and health sciences, Gene duplication, Gene family, education, Gene, 030304 developmental biology, 010606 plant biology & botany
Abstract: Shaping Plant Evolution Amborella trichopoda is understood to be the most basal extant flowering plant and its genome is anticipated to provide insights into the evolution of plant life on Earth (see the Perspective by Adams ). To validate and assemble the sequence, Chamala et al. (p. 1516 ) combined fluorescent in situ hybridization (FISH), genomic mapping, and next-generation sequencing. The Amborella Genome Project (p. 10.1126/science.1241089 ) was able to infer that a whole-genome duplication event preceded the evolution of this ancestral angiosperm, and Rice et al. (p. 1468 ) found that numerous genes in the mitochondrion were acquired by horizontal gene transfer from other plants, including almost four entire mitochondrial genomes from mosses and algae.
Published: 2013

5. Manipulating plant community composition to steer efficient N-cycling in intensively managed grasslands

Author: David Bru, Laurent Philippot, Callum Clark, Ignacio Mariscal-Sancho, Gerlinde B. De Deyn, Barbora Oudová, Ioannis Pantelis, Andrea Fiorini, Diego Abalos, Natalie J. Oram, Jan Willem van Groenigen, Wageningen Univ, Soil Biol Grp, Wageningen, Netherlands., Aarhus University [Aarhus], Agroécologie [Dijon], Université de Bourgogne (UB)-AgroSup Dijon - Institut National Supérieur des Sciences Agronomiques, de l'Alimentation et de l'Environnement-Université Bourgogne Franche-Comté [COMUE] (UBFC)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Univ East Anglia, Sch Biol Sci, Norwich, Norfolk, England., Univ Cattolica Sacro Cuore, Dept Sustainable Crop Prod, Piacenza, Italy., and Univ Politecn Madrid, ETS Ingn Agron Alimentaria & Biosistemas, Dept Prod Agr, Madrid, Spain
Subjects: 0106 biological sciences, Agroecosystem, DECOMPOSITION, N2O emissions, DIVERSITY, COMPLEMENTARITY, nitrogen losses, 010603 evolutionary biology, 01 natural sciences, nitrogen cycling, Abundance (ecology), functional traits, plant and soil interactions, Nitrogen cycle, Legume, Bodembiologie, 2. Zero hunger, Biomass (ecology), Ecology, biology, grass legume mixtures, 010604 marine biology & hydrobiology, SPECIES RICHNESS, Earthworm, fungi, MIXTURES, food and beverages, Plant community, Soil Biology, 15. Life on land, biology.organism_classification, PE&RC, SOIL, Agronomy, FUNCTIONAL TRAITS, NO emissions, 13. Climate action, [SDE]Environmental Sciences, BIODIVERSITY, plant mixtures, plant species identity, Monoculture, ELEVATED CO2
Abstract: Minimizing nitrogen (N) losses and increasing plant N uptake in agroecosystems is a major global challenge. Ecological concepts from (semi)natural grasslands suggest that manipulating plant community composition using plant species with different traits may represent a promising opportunity to face this challenge. Here, we translate these trait-based concepts to agricultural systems in a field experiment, aiming to reveal the main determinants of how plant community composition regulates N-cycling in intensively managed grasslands.We focused on key N pools (plant N from soil and from biological N-fixation, soil mineral N and N2O emissions) as well as on biological drivers of N-cycling in soil (abundance of N-cycling microbial communities, earthworm populations and arbuscular mycorrhizal fungi), using three common grass and one legume species in monoculture, two- and four-species mixtures. We hypothesized that: (a) plant species mixtures increase plant N uptake, reduce soil mineral N concentrations and N2O emissions and promote the abundance of biological N-cyclers; (b) legume presence stimulates N pools, fluxes and biological N-cycling activity, (c) but in combination with a grass with acquisitive traits, more N is retained in the plant community, while N2O emissions are reduced.We found that mixtures increased plant N and lowered the soil mineral N pool compared to monocultures. However, plant species identity played an overarching role: Legume presence increased N2O emissions, plant N pools, soil mineral N and the abundance of N-cycling microbes and earthworms. Combining the legume with a grass with low leaf dry matter content and high root length density (and with high root biomass) reduced the higher soil mineral N and N2O emissions induced by the legume, while harnessing positive effects on plant N pools and biological N-fixation.Synthesis and applications. Our results show the potential of plant community composition to steer N-cycling in fertilized agroecosystems, paving the way for a more biologically based agriculture. Legumes will play a crucial role, but selecting an optimum companion species is key for the sustainability of the agroecosystem.
Published: 2021

6. Genome-wide association study identified candidate genes for seed size and seed composition improvement in M. truncatula

Author: Yi-Min She, Yun Kang, Vanessa Lancon-Verdier, Christine Le Signor, Zhijuan Chen, Jerome Verdier, Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-AGROCAMPUS OUEST, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Groupe de Recherche en Agroalimentaire sur les Produits et les Procédés (GRAPPE), Ecole supérieure d'Agricultures d'Angers (ESA)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Agroécologie [Dijon], Université de Bourgogne (UB)-AgroSup Dijon - Institut National Supérieur des Sciences Agronomiques, de l'Alimentation et de l'Environnement-Université Bourgogne Franche-Comté [COMUE] (UBFC)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Chinese Acad Sci, Shanghai Inst Biol Sci, CAS MPG Partner Inst Computat Biol, CAS Key Lab Computat Biol, Shanghai, Peoples R China, Partenaires INRAE, Ottawa Health Research Institute, Region Pays de la Loire, European Commission, and China Scholarship Council (CSC) from the Ministry of Education of P.R. China: 01704910863.
Subjects: Agricultural genetics, 0106 biological sciences, 0301 basic medicine, Plant genetics, Science, Quantitative Trait Loci, Population, Quantitative trait locus, Biology, Genes, Plant, 01 natural sciences, Article, [SDV.GEN.GPL]Life Sciences [q-bio]/Genetics/Plants genetics, 03 medical and health sciences, Quantitative Trait, Heritable, Medicago truncatula, Botany, Storage protein, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, education, Legume, 2. Zero hunger, chemistry.chemical_classification, education.field_of_study, Genetic diversity, Multidisciplinary, Medicago, Geography, Computational Biology, food and beverages, 15. Life on land, biology.organism_classification, Gene Ontology, Phenotype, 030104 developmental biology, chemistry, Plant protein, Seeds, Medicine, Edible Grain, Algorithms, Genome, Plant, Genome-Wide Association Study, 010606 plant biology & botany
Abstract: Grain legumes are highly valuable plant species, as they produce seeds with high protein content. Increasing seed protein production and improving seed nutritional quality represent an agronomical challenge in order to promote plant protein consumption of a growing population. In this study, we used the genetic diversity, naturally present in Medicago truncatula, a model plant for legumes, to identify genes/loci regulating seed traits. Indeed, using sequencing data of 162 accessions from the Medicago HAPMAP collection, we performed genome-wide association study for 32 seed traits related to seed size and seed composition such as seed protein content/concentration, sulfur content/concentration. Using different GWAS and postGWAS methods, we identified 79 quantitative trait nucleotides (QTNs) as regulating seed size, 41 QTNs for seed composition related to nitrogen (i.e. storage protein) and sulfur (i.e. sulfur-containing amino acid) concentrations/contents. Furthermore, a strong positive correlation between seed size and protein content was revealed within the selected Medicago HAPMAP collection. In addition, several QTNs showed highly significant associations in different seed phenotypes for further functional validation studies, including one near an RNA-Binding Domain protein, which represents a valuable candidate as central regulator determining both seed size and composition. Finally, our findings in M. truncatula represent valuable resources to be exploitable in many legume crop species such as pea, common bean, and soybean due to its high synteny, which enable rapid transfer of these results into breeding programs and eventually help the improvement of legume grain production.
Published: 2021

7. Whole genome comparisons of Fragaria, Prunus and Malus reveal different modes of evolution between Rosaceous subfamilies

Author: Sook Jung, Bryon Sosinski, Vladimir Shulaev, Alessandro Cestaro, Kevin M. Folta, Riccardo Velasco, Jean-Marc Celton, Il-Hyung Cho, Albert G. Abbott, Ping Zheng, Ignazio Verde, Michele Morgante, Michela Troggio, Daniel S. Rokhsar, Pere Arús, Dorrie Main, Daniel J. Sargent, Dept Hort & Landscape Architecture, Washington State University (WSU), Istituto Agrario di San Michele all' Adige, Univ Ctr, University Ctr, Saginaw Valley State Univ, Dept Hort Sci, University of Florida [Gainesville] (UF), North Carolina State University [Raleigh] (NC State), University of North Carolina System (UNC)-University of North Carolina System (UNC), Dept Biochem & Genet, Clemson University, Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Ctr Recerca Agrigenom, IRTA Barcelona, Spanish National Research Council (CSIC), Dept Biol Sci, University of North Texas (UNT), CRA Fruit Tree Res Ctr, Applied Genomics Institute (IGA), Department of Energy / Joint Genome Institute (DOE), Los Alamos National Laboratory (LANL), USDA NIFA SCRI [2010-2010-03255], and University of Florida [Gainesville]
Subjects: 0106 biological sciences, CHROMOSOME, Rosaceae, [SDV]Life Sciences [q-bio], SEQUENCE DATA, 01 natural sciences, Genome, Prunus, MARKERS, Conserved Sequence, Phylogeny, 0303 health sciences, biology, ORIGIN, Genomics, PROVIDE, Fragaria, Settore AGR/07 - GENETICA AGRARIA, Malus, Algorithms, Genome, Plant, Research Article, Biotechnology, lcsh:QH426-470, Evolution, lcsh:Biotechnology, Chromosomes, Plant, LINKAGE MAP, Evolution, Molecular, 03 medical and health sciences, Sequence Homology, Nucleic Acid, lcsh:TP248.13-248.65, Botany, Genetics, 030304 developmental biology, Synteny, Comparative genomics, ARABIDOPSIS-THALIANA, SYNTENY, 15. Life on land, biology.organism_classification, lcsh:Genetics, Rosacea, 010606 plant biology & botany
Abstract: Background Rosaceae include numerous economically important and morphologically diverse species. Comparative mapping between the member species in Rosaceae have indicated some level of synteny. Recently the whole genome of three crop species, peach, apple and strawberry, which belong to different genera of the Rosaceae family, have been sequenced, allowing in-depth comparison of these genomes. Results Our analysis using the whole genome sequences of peach, apple and strawberry identified 1399 orthologous regions between the three genomes, with a mean length of around 100 kb. Each peach chromosome showed major orthology mostly to one strawberry chromosome, but to more than two apple chromosomes, suggesting that the apple genome went through more chromosomal fissions in addition to the whole genome duplication after the divergence of the three genera. However, the distribution of contiguous ancestral regions, identified using the multiple genome rearrangements and ancestors (MGRA) algorithm, suggested that the Fragaria genome went through a greater number of small scale rearrangements compared to the other genomes since they diverged from a common ancestor. Using the contiguous ancestral regions, we reconstructed a hypothetical ancestral genome for the Rosaceae 7 composed of nine chromosomes and propose the evolutionary steps from the ancestral genome to the extant Fragaria, Prunus and Malus genomes. Conclusion Our analysis shows that different modes of evolution may have played major roles in different subfamilies of Rosaceae. The hypothetical ancestral genome of Rosaceae and the evolutionary steps that lead to three different lineages of Rosaceae will facilitate our understanding of plant genome evolution as well as have a practical impact on knowledge transfer among member species of Rosaceae., This project has been supported by the USDA NIFA SCRI grant # 2010-2010-03255. We acknowledge International Peach Genome Initiative for the permission to use the peach genome in this study
Published: 2021

8. Siesta : recent developments and applications

Author: Rafi Ullah, Georg Huhs, Emanuele Bosoni, Volker Blum, Alberto García, Pablo Ordejón, Emilio Artacho, Andrei Postnikov, Irina V. Lebedeva, Fabiano Corsetti, Richard Korytár, Miguel Pruneda, Ramón Cuadrado, Vladimir Dikan, Roberto Robles, Pablo García-Fernández, Jaime Ferrer, Mads Brandbyge, Javier Junquera, Jorge Cerdá, José M. Soler, Pedro Brandimarte, Nick Rübner Papior, Lin Lin, Victor Yu, Stephan Mohr, Sandra García, Sergio Illera, Peter Koval, Víctor M. García-Suárez, Arsalan Akhtar, Yann Pouillon, Pablo López-Tarifa, Sara G. Mayo, Julian D. Gale, Daniel Sánchez-Portal, Barcelona Supercomputing Center, Facultad de Ciencias y Tecnologías Químicas de Ciudad Real (UCLM), Institut Català de Nanociència i Nanotecnologia (ICN2), Universitat Autònoma de Barcelona (UAB), Catalan Institute of Nanoscience and Nanotechnology (ICN2), Consejo Superior de Investigaciones Científicas [Madrid] (CSIC)-Barcelona Institute of Science and Technology (BIST), Department of Earth Sciences [Cambridge, UK], University of Cambridge [UK] (CAM), Duke University [Durham], Institut de Ciència de Materials de Barcelona (ICMAB), Consejo Superior de Investigaciones Científicas [Madrid] (CSIC), Donostia International Physics Center (DIPC), University of the Basque Country/Euskal Herriko Unibertsitatea (UPV/EHU), Center for Nanostructured Graphene, Instituto Ciencias del Mar, CICNanoGUNE, University of Oviedo, Nanochemistry Research Institute, Curtin University [Perth], Planning and Transport Research Centre (PATREC)-Planning and Transport Research Centre (PATREC), Universidad de Cantabria [Santander], Universidad de Oviedo [Oviedo], Institut des Biomolécules Max Mousseron [Pôle Chimie Balard] (IBMM), Ecole Nationale Supérieure de Chimie de Montpellier (ENSCM)-Institut de Chimie du CNRS (INC)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS), Barcelona Supercomputing Center - Centro Nacional de Supercomputacion (BSC - CNS), Department of Applied Mathematics and Institute of Theoretical Computer Science (Charles University), Charles University [Prague] (CU), CIC NanoGUNE BRTA, Shanghai Inst Biol Sci, Inst Plant Physiol & Ecol, Natl Key Lab Plant Mol Genet, Chinese Academy of Sciences [Beijing] (CAS), Ecole Polytechnique Fédérale de Lausanne (EPFL), Universidad Autonoma de Madrid (UAM), University of Basel (Unibas), Laboratoire de Chimie et Physique - Approche Multi-échelle des Milieux Complexes (LCP-A2MC), Université de Lorraine (UL), ICN2 - Institut Catala de Nanociencia i Nanotecnologia (ICN2), Centro Mixto CSIC-UPV/EHU, Donostia International Physics Center - DIPC (SPAIN), University of the Basque Country/Euskal Herriko Unibertsitatea (UPV/EHU)-University of the Basque Country/Euskal Herriko Unibertsitatea (UPV/EHU), Departamento de Ciencias de la Tierra y Fisica de la Materia Condensada, Ministerio de Economía y Competitividad (España), Agencia Estatal de Investigación (España), Ministerio de Ciencia, Innovación y Universidades (España), Generalitat de Catalunya, European Commission, Universidad del País Vasco, Eusko Jaurlaritza, National Science Foundation (US), Universidad de Cantabria, and Simune Atomistics
Subjects: Scheme (programming language), Interface (Java), Computer science, Wannier functions, [PHYS.MPHY]Physics [physics]/Mathematical Physics [math-ph], Interoperability, FOS: Physical sciences, General Physics and Astronomy, Molecular dynamics, 010402 general chemistry, computer.software_genre, 01 natural sciences, Electronic Structure Software, Computational science, Informàtica::Aplicacions de la informàtica [Àrees temàtiques de la UPC], Ab initio electronic structure calculations, Matrix analytic methods, 0103 physical sciences, Spin-orbit interactions, Plug-in, Dinàmica molecular, Multiscale methods, Charge density, Density functional theory (DFT)+U, Physical and Theoretical Chemistry, SIESTA (computer program), Electronic Structure Library, computer.programming_language, Ballistic electron transport, Condensed Matter - Materials Science, Mathematical models, 010304 chemical physics, SIESTA, Electron transport, Hybrid density functional calculations, Materials Science (cond-mat.mtrl-sci), Models matemàtics, Computational Physics (physics.comp-ph), Grid, Supercomputer, Pseudopotential method, PSeudopotential Markup Language, 0104 chemical sciences, Time dependent density functional theory, Workflow, Density functional theory, High performance computing, Physics - Computational Physics, computer
Abstract: This article is part of the JCP Special Topic on Electronic Structure Software., A review of the present status, recent enhancements, and applicability of the SIESTA program is presented. Since its debut in the mid-1990s, SIESTA’s flexibility, efficiency, and free distribution have given advanced materials simulation capabilities to many groups worldwide. The core methodological scheme of SIESTA combines finite-support pseudo-atomic orbitals as basis sets, norm-conserving pseudopotentials, and a realspace grid for the representation of charge density and potentials and the computation of their associated matrix elements. Here, we describe the more recent implementations on top of that core scheme, which include full spin–orbit interaction, non-repeated and multiple-contact ballistic electron transport, density functional theory (DFT)+U and hybrid functionals, time-dependent DFT, novel reduced-scaling solvers, density-functional perturbation theory, efficient van der Waals non-local density functionals, and enhanced molecular-dynamics options. In addition, a substantial effort has been made in enhancing interoperability and interfacing with other codes and utilities, such as WANNIER90 and the second-principles modeling it can be used for, an AiiDA plugin for workflow automatization, interface to Lua for steering SIESTA runs, and various post-processing utilities. SIESTA has also been engaged in the Electronic Structure Library effort from its inception, which has allowed the sharing of various low-level libraries, as well as data standards and support for them, particularly the PSeudopotential Markup Language definition and library for transferable pseudopotentials, and the interface to the ELectronic Structure Infrastructure library of solvers. Code sharing is made easier by the new open-source licensing model of the program. This review also presents examples of application of the capabilities of the code, as well as a view of on-going and future developments., Siesta development was historically supported by different Spanish National Plan projects (Project Nos. MEC-DGES-PB95-0202, MCyT-BFM2000-1312, MEC-BFM2003-03372, FIS2006-12117, FIS2009-12721, FIS2012-37549, FIS2015-64886-P, and RTC-2016-5681-7), the latter one together with Simune Atomistics Ltd. We are thankful for financial support from the Spanish Ministry of Science, Innovation and Universities through Grant No. PGC2018-096955-B. We acknowledge the Severo Ochoa Center of Excellence Program [Grant Nos. SEV-2015-0496 (ICMAB) and SEV-2017-0706 (ICN2)], the GenCat (Grant No. 2017SGR1506), and the European Union MaX Center of Excellence (EU-H2020 Grant No. 824143). P.G.-F. acknowledges support from Ramón y Cajal (Grant No. RyC-2013-12515). J.I.C. acknowledges Grant No. RTI2018-097895-B-C41. R.C. acknowledges the European Union’s Horizon 2020 Research and Innovation Program under Marie Skłodoswka-Curie Grant Agreement No. 665919. D.S.P, P.K., and P.B. acknowledge Grant No. MAT2016-78293-C6, FET-Open No. 863098, and UPV-EHU Grant No. IT1246-19. V. W. Yu was supported by a MolSSI Fellowship (U.S. NSF Award No. 1547580), and V.B. and V.W.Y. were supported by the ELSI Development by the NSF (Award No. 1450280).
Published: 2021

9. Long-term thermal sensitivity of Earth's tropical forests

Author: Bruno Herault, Peter J. Van Der Meer, Jean-François Bastin, Aurora Levesley, Michael D. Swaine, Rodolfo Vásquez Martínez, Martin Dančák, Matt Bradford, Frans Bongers, Stuart J. Davies, Reuben Nilus, Adriano José Nogueira Lima, Lip Khoon Kho, Edmar Almeida de Oliveira, Joey Talbot, Richard F. Preziosi, Jagoba Malumbres-Olarte, James A. Comiskey, Thalès de Haulleville, José Luís Camargo, Terese B. Hart, Juliana Schietti, Peter S. Ashton, Thomas E. Lovejoy, Ophelia Wang, Kanehiro Kitayama, Francis Q. Brearley, Peter van der Hout, Amy C. Bennett, Janvier Lisingo, Luis Valenzuela Gamarra, Lily Rodriguez Bayona, Zorayda Restrepo Correa, Jérôme Chave, Connie J. Clark, Christopher Baraloto, Gerardo Aymard, Serge K. Begne, Kofi Affum-Baffoe, Abel Monteagudo-Mendoza, Geertje M. F. van der Heijden, Fernanda Coelho de Souza, Timothy R. Baker, Rahayu Sukmaria Sukri, Julie Peacock, Hermann Taedoumg, Simon L. Lewis, Yahn Carlos Soto Shareva, Greta C. Dargie, Murielle Simo-Droissart, David Harris, Faizah Metali, Hans ter Steege, Richard Lowe, Géraldine Derroire, Benoit Burban, Camila Silva Valeria, Martin Svátek, Wannes Hubau, Sarah A. Batterman, Vincent A. Vos, Elizabeth Kearsley, Peter M. Umunay, Martin J. P. Sullivan, Flávia R. C. Costa, Hans Verbeeck, Maria Cristina Peñuela Mora, John R. Poulsen, Simon Willcock, Simone Aparecida Vieira, Jean-Louis Doucet, Foster Brown, Yadvinder Malhi, Luisa Fernanda Duque, Ronald Vernimmen, Miguel E. Leal, Alan Hamilton, Martin Gilpin, Colin R. Maycock, Carlos Cerón, Radim Hédl, Oliver L. Phillips, Walter Huaraca Huasco, Jon C. Lovett, Beatriz Schwantes Marimon, Roderick Zagt, Ted R. Feldpausch, Gabriela Lopez-Gonzalez, Ima Célia Guimarães Vieira, Pascal Boeckx, Roel J. W. Brienen, Marcelo F. Simon, Keith C. Hamer, Alberto Vicentini, Corneille E. N. Ewango, Clément Stahl, Javier Silva Espejo, Ana Andrade, Anand Roopsind, Erika Berenguer, Pieter A. Zuidema, Vianet Mihindou, Murray Collins, Simone Matias Reis, Emilio Vilanova Torre, Kathryn J. Jeffery, Marie Noël Kamdem Djuikouo, Terry Brncic, Percy Núñez Vargas, John Terborgh, Paulo S. Morandi, Bonaventure Sonké, Jan Bogaert, William E. Magnusson, Lilian Blanc, Terry L. Erwin, Ervan Rutishauser, Anthony Di Fiore, Isau Huamantupa-Chuquimaco, Edward T. A. Mitchard, Massiel Corrales Medina, Nicholas J. Berry, Juliana Stropp, Maureen Playfair, Luzmila Arroyo, Douglas Sheil, Armando Torres-Lezama, David A. Neill, Sean C. Thomas, Eric Arets, Ernest G. Foli, Lola da Costa, Ricardo Keichi Umetsu, Lan Qie, James Singh, Lise Zemagho, Agustín Rudas, Richard B. Primack, Jan Reitsma, Annette Hladik, Alexander K. Koch, Colin A. Pendry, Walter A. Palacios, Sabina Cerruto Ribeiro, Nicolas Labrière, Fernando Elias, Eric Chezeaux, William Milliken, Manuel Gloor, Romeo Ekoungoulou, Jefferson S. Hall, Henrique E. M. Nascimento, Susan G. Laurance, Axel Dalberg Poulsen, Marcos Silveira, Carolina V. Castilho, Plínio Barbosa de Camargo, Eurídice N. Honorio Coronado, Kamariah Abu Salim, Joeri A. Zwerts, Marcelo Brilhante de Medeiros, Jos Barlow, Georgia Pickavance, Joice Ferreira, Mark van Nieuwstadt, Jorcely Barroso, Andrew R. Marshall, Miguel Alexiades, Lindsay F. Banin, Terry Sunderland, Lourens Poorter, Alejandro Araujo-Murakami, Varun Swamy, Rafael Herrera, Hans Beeckman, Gerardo Flores Llampazo, Shin-ichiro Aiba, Adriane Esquivel-Muelbert, Michelle Kalamandeen, Adriana Prieto, Ben Hur Marimon, Casimiro Mendoza, Victor Chama Moscoso, Eliana Jimenez-Rojas, Hirma Ramírez-Angulo, Maxime Réjou-Méchain, Vincent Droissart, Nigel C. A. Pitman, Hannah L. Mossman, Everton Cristo de Almeida, Fernando Cornejo Valverde, Ângelo Gilberto Manzatto, Aurélie Dourdain, Luiz E. O. C. Aragão, Raquel Thomas, David W. Galbraith, Kenneth R. Young, Nallaret Davila Cardozo, Timothy J. Killeen, Rafael de Paiva Salomão, Bente B. Klitgaard, James Taplin, Damien Bonal, Karina Melgaço, William F. Laurance, Jason Vleminckx, Esteban Alvarez Dávila, Verginia Wortel, Richarlly da Costa Silva, Thaiane Rodrigues de Sousa, Sophie Fauset, Nadir Pallqui Camacho, Wendeson Castro, Toby R. Marthews, Fabricio Beggiato Baccaro, John T. Woods, David Taylor, Patricia Alvarez Loayza, Andrew Ford, Niro Higuchi, Aida Cuni Sanchez, Aline Pontes Lopes, Laszlo Nagy, John Pipoly, Lee J. T. White, Jhon del Aguila Pasquel, European Research Council, European Commission, Royal Society (UK), Leverhulme Trust, Gordon and Betty Moore Foundation, David and Lucile Packard Foundation, Fundação de Amparo à Pesquisa do Estado de São Paulo, Conselho Nacional de Desenvolvimento Científico e Tecnológico (Brasil), Agence Nationale de la Recherche (France), Missouri Botanical Garden, Smithsonian Institution, Wildlife Conservation Society, National Geographic Society, Centre for International Forestry Research, Agence Nationale Des Parcs Nationaux (Gabon), University of Leeds, Mensurat Unit, Forestry Research Institute of Ghana, Centro de Pesquisa Agroflorestal de Roraima, Brazilian Agricultural Research Corporation (Embrapa), Sch Geog, University of Nottingham, Department of Biology, Higher Teachers Training College (HTTC), Université deYaoundé I, School of Geography [Leeds], University of Edinburgh, School of Geography and the Environment, Environmental Change Institute, University of Oxford [Oxford], Grad Sch Sci & Engn, Kagoshima University, University of Kent [Canterbury], Universidade Federal do Mato Grosso (UFMT), Universidad Nacional de Colombia, Duke University [Durham], Instituto Nacional de Pesquisas da Amazônia (INPA), University of Campinas [Campinas] (UNICAMP), National Institute for Space Research [Sao José dos Campos] (INPE), Universidad Autonoma Gabriel René Moreno (UAGRM), Wageningen University and Research [Wageningen] (WUR), Dept Organism & Evolutionary Biol, Harvard University [Cambridge], Ecologie des forêts de Guyane (ECOFOG), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Université des Antilles et de la Guyane (UAG)-AgroParisTech-Centre National de la Recherche Scientifique (CNRS), Universidade de São Paulo (USP), Universidade Federal do Acre (UFAC), Research Unit of Landscape Ecology and Plant Production Systems, Université libre de Bruxelles (ULB), School of Engineering and Science, Jacobs University [Bremen], Lancaster Environment Centre, Lancaster University, Sch Geosci, Laboratory of Applied Physical Chemistry, Universiteit Gent = Ghent University [Belgium] (UGENT), Biodiversité et Paysage, Université de Liège - Gembloux, Ecologie et Ecophysiologie Forestières [devient SILVA en 2018] (EEF), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), Forest Ecol & Forest Management Grp, CSIRO Land and Water, Commonwealth Scientific and Industrial Research Organisation [Canberra] (CSIRO), Woods Hole Research Center, Partenaires INRAE, Herbario Alfredo Paredes, Universidad Agraria del Ecuador, Universidad Nacional de San Antonio Abad del Cusco (UNSAAC), Evolution et Diversité Biologique (EDB), Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, Rougier Gabon, Andes to Amazon Biodiversity Program, Federal University of Para - Universidade Federal do Para [Belem - Brésil], Smithsonian Tropical Research Institute, Universidad Nacional de la Amazonía Peruana [Loreto, Perou] (UNAP), AgroParisTech, University of Texas at Austin [Austin], Université de Liège, Ecologie des forêts de Guyane (UMR ECOFOG), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-AgroParisTech-Université de Guyane (UG)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Laboratoire des Milieux Désordonnés et Hétérogènes (LMDH), Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS), Commonwealth Scientific & Industrial Research Organisation (CSIRO), Royal Botanic Gardens, Czech Academy of Sciences [Prague] (CAS), Commissariat général du Plan (CGP), Premier ministre, Instituto Nacional de Pequisas da Amazônia, Instituto National de Pequisas da Amazonia Brazil, Éco-Anthropologie (EAE), Muséum national d'Histoire naturelle (MNHN)-Centre National de la Recherche Scientifique (CNRS), Agence Nationale des Parcs Nationaux, Agence Nationale des Parcs Nationaux, BP 30 379 Libreville, Gabon, Malaysian Palm Oil Board, Kyoto University, Institute of Inorganic and Analytical Chemistry, Friedrich-Schiller-Universität = Friedrich Schiller University Jena [Jena, Germany], James Cook University (JCU), Laboratoire d'Etude de l'Apprentissage et du Développement [Dijon] (LEAD), Centre National de la Recherche Scientifique (CNRS)-Université de Bourgogne (UB), Coordenac Bao de Pesquisas em Ecologia, Universidade do Estado de Mato Grosso (UNEMAT), University of Mary Washington, Chercheur indépendant, Royal Botanic Garden , Kew, Department of Biochemistry and Molecular Biology, Medical and Health Science Center, Instituto Superior Técnico, Universidade Técnica de Lisboa (IST), Universidad Estatal Amazonica, Forest Research Centre (FRC), Forest Ecology and Forest Management Group, Natural History Museum [Oslo], University of Oslo (UiO), Bur Waarderburg, Iwokrama International Centre for Rainforest Conservation and Development, CarboForExpert, Museu Paraense Emílio Goeldi [Belém, Brésil] (MPEG), Center for International Forestry Research (CIFOR), Consultative Group on International Agricultural Research [CGIAR] (CGIAR), University of Yaoundé [Cameroun], JRC Institute for Environment and Sustainability (IES), European Commission - Joint Research Centre [Ispra] (JRC), Institute of Biological and Environmental Sciences, School of Biological Sciences, University of Aberdeen, Plant Systemat & Ecol Lab, Université de Yaoundé I, Department of Neurology, Great Ormond Street Hospital for Children [London] (GOSH), Naturalis Biodiversity Center [Leiden], Division of Marine Science and Conservation, Nicholas School of the Environment, Instituto de Investigaciones para el Desarrollo Forestal, Universidad de los Andes [Bogota] (UNIANDES), University of Wisconsin - Milwaukee, Van der Hout Forestry Consulting, University Medical Center Groningen [Groningen] (UMCG), Computational & Applied Vegetation Ecology (CAVElab), Department of Integrative Biology [Berkeley] (IB), University of California [Berkeley], University of California-University of California, Sch Earth Sci & Environm Sustainabil, Northern Arizona University [Flagstaff], University of Stirling, Biol Sci, Liverpool John Moore University (ljmu), Biodiversity Department, Center for Agricultural Research in Suriname (CELOS), Sub Ecology and Biodiversity, Sub Animal Ecology, Ecology and Biodiversity, Animal Ecology, and Systems Ecology
Subjects: 0106 biological sciences, Tropical trees, Hot Temperature, 010504 meteorology & atmospheric sciences, Earth, Planet, Climate, Acclimatization, Tropical forest carbon stocks, Bos- en Landschapsecologie, Growth, Forests, Atmospheric sciences, [SDV.BID.SPT]Life Sciences [q-bio]/Biodiversity/Systematics, Phylogenetics and taxonomy, 01 natural sciences, Trees, Tropical climate, SDG 13 - Climate Action, Forest and Landscape Ecology, Biomass, Photosynthesis, Hectare, Productivity, Biomass (ecology), Multidisciplinary, [SDV.BV.BOT]Life Sciences [q-bio]/Vegetal Biology/Botanics, PE&RC, Wood, Productivity (ecology), Vegetatie, Bos- en Landschapsecologie, C180 Ecology, Tree, Leaf Respiration, Carbon-Cycle Feedbacks, Climate Change, Climate change and forestry, Climate change, 010603 evolutionary biology, Carbon cycle, Carbon Cycle, [SDV.EE.ECO]Life Sciences [q-bio]/Ecology, environment/Ecosystems, Life Science, Bosecologie en Bosbeheer, Vegetatie, 0105 earth and related environmental sciences, Tropical Climate, Vegetation, Global warming, Tropics, 15. Life on land, Forest Ecology and Forest Management, Carbon, CO₂ Fertilization, 13. Climate action, Environmental science, Vegetation, Forest and Landscape Ecology, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Acclimation
Abstract: The sensitivity of tropical forest carbon to climate is a key uncertainty in predicting global climate change. Although short-term drying and warming are known to affect forests, it is unknown if such effects translate into long-term responses. Here, we analyze 590 permanent plots measured across the tropics to derive the equilibrium climate controls on forest carbon. Maximum temperature is the most important predictor of aboveground biomass (-9.1 megagrams of carbon per hectare per degree Celsius), primarily by reducing woody productivity, and has a greater impact per °C in the hottest forests (>32.2°C). Our results nevertheless reveal greater thermal resilience than observations of short-term variation imply. To realize the long-term climate adaptation potential of tropical forests requires both protecting them and stabilizing Earth's climate., Our plot monitoring networks havebeen supported by multiple grants from a large number of funding bodies: European Research Council; Natural Environment Research Council; European Union’s Fifth, Sixth, and Seventh Framework Programme; Royal Society, Leverhulme Trust; Gordon and Betty Moore Foundation; David and Lucile Packard Foundation; State of São Paulo Research Foundation (FAPESP); National Council for Science and Technology Development of Brazil (CNPq); Agence Nationale de la Recherche; Conservation International; Missouri Botanical Garden; Smithsonian Institution; Wildlife Conservation Society; National Geographic Society; Centre for International Forestry; and Gabon’s National Park Agency.
Published: 2020

10. Accelerated increase in plant species richness on mountain summits is linked to warming

Author: Jonathan Lenoir, Sara Palacio, Anna Delimat, Ingolf Kühn, Blazena Sedlakova, Gerald Jurasinski, Robert Kanka, Sarah J. Woodin, Stefan Dullinger, Sonja Wipf, Daniel Gómez-García, Olatz Fernández-Arberas, Umberto Morra di Cella, Manuel J. Steinbauer, Jens-Christian Svenning, Magalì Matteodo, Veronika Piscová, Vivian A. Felde, Christian Rixen, Siri V. Haugum, Hanne Henriksen, Veronika Stöckli, María J. Herreros, Manfred Bardy-Durchhalter, Signe Normand, Arvid Odland, Martina Petey, Harald Pauli, Niklaus E. Zimmermann, Andrea Lamprecht, Brigitta Erschbamer, Frank T. Breiner, Aino Kulonen, John-Arvid Grytnes, Bogdan Jaroszewicz, Anne D. Bjorkman, Elena Barni, Siri Lie Olsen, Klaus Steinbauer, Jutta Kapfer, Francesca Jaroszynska, Kari Klanderud, Pascal Vittoz, Melissa A. Dawes, Jean-Paul Theurillat, Erlend T. Grindrud, Guido Teppa, Manuela Winkler, Kjetil F. Fossheim, Sylvia Haider, Sarah Burg, Patryk Czortek, Damien Georges, BayCEER, Bayreuth Center of Ecology and Environmental Research, Dept Biol, University of Bergen (UiB), Ecologie et Dynamique des Systèmes Anthropisés - UMR CNRS 7058 (EDYSAN), Université de Picardie Jules Verne (UPJV)-Centre National de la Recherche Scientifique (CNRS), University of Vienna [Vienna], WSL Institute for Snow and Avalanche Research SLF, Department of Biological Sciences [Bergen] (BIO / UiB), Instituto Pirenaico de Ecologia (IPE), Consejo Superior de Investigaciones Científicas [Madrid] (CSIC), University of Warsaw (UW), Helmholtz Zentrum für Umweltforschung = Helmholtz Centre for Environmental Research (UFZ), Institut des Dynamiques de la Surface Terrestre [Lausanne] (IDYST), Université de Lausanne (UNIL), Dept Biol Sci, Ecoinformat & Biodivers Grp, Aarhus University [Aarhus], Centre alpien de Phytogéographie, Fondation J.-M. Aubert, Département d'écologie et évolution, Université de Lausanne (UNIL)-Université de Lausanne (UNIL), Institut Fédéral de Recherches sur la Forêt, la Neige et le Paysage (WSL), and Institut Fédéral de Recherches [Suisse]
Subjects: 0106 biological sciences, 010504 meteorology & atmospheric sciences, RANGE SHIFTS, [SDE.MCG]Environmental Sciences/Global Changes, CLIMATE CHANGE, Species distribution, DIVERSITY, Biodiversity, Geographic Mapping, Climate change, [SDV.BID]Life Sciences [q-bio]/Biodiversity, Global Warming, History, 21st Century, 010603 evolutionary biology, 01 natural sciences, Ecosystem, ELEVATION, Macroecology, 0105 earth and related environmental sciences, [SDV.EE]Life Sciences [q-bio]/Ecology, environment, CLIMATE-CHANGE, NITROGEN DEPOSITION, Multidisciplinary, CLIMATE CHANGE, ALPINE PLANTS, NITROGEN DEPOSITION, RANGE SHIFTS, MODEL, DIVERSITY, ELEVATION, Ecology, Altitude, Global warming, Temperature, ALPINE PLANTS, Global change, History, 20th Century, Plants, 15. Life on land, Europe, MODEL, Geography, 13. Climate action, Species richness, [SDE.BE]Environmental Sciences/Biodiversity and Ecology
Abstract: Globally accelerating trends in societal development and human environmental impacts since the mid-twentieth century 1–7 are known as the Great Acceleration and have been discussed as a key indicator of the onset of the Anthropocene epoch 6 . While reports on ecological responses (for example, changes in species range or local extinctions) to the Great Acceleration are multiplying 8, 9 , it is unknown whether such biotic responses are undergoing a similar acceleration over time. This knowledge gap stems from the limited availability of time series data on biodiversity changes across large temporal and geographical extents. Here we use a dataset of repeated plant surveys from 302 mountain summits across Europe, spanning 145 years of observation, to assess the temporal trajectory of mountain biodiversity changes as a globally coherent imprint of the Anthropocene. We find a continent-wide acceleration in the rate of increase in plant species richness, with five times as much species enrichment between 2007 and 2016 as fifty years ago, between 1957 and 1966. This acceleration is strikingly synchronized with accelerated global warming and is not linked to alternative global change drivers. The accelerating increases in species richness on mountain summits across this broad spatial extent demonstrate that acceleration in climate-induced biotic change is occurring even in remote places on Earth, with potentially far-ranging consequences not only for biodiversity, but also for ecosystem functioning and services.
Published: 2018

11. Direct detection of phenol using a new bacterial strain-based conductometric biosensor

Author: Mohamed Braiek, Seyed Omid Ranaei-Siadat, Nicole Jaffrezic-Renault, Florence Lagarde, Gholamhossein Ebrahimipour, Narjes Kolahchi, Dept Microbiol, Shahid Beheshti Univ, Fac Biol Sci, Interfaces & biosensors - Interfaces & biocapteurs, Institut des Sciences Analytiques (ISA), Institut de Chimie du CNRS (INC)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-Institut de Chimie du CNRS (INC)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS), Dept Biotechnol, Shahid Beheshti Univ, Fac Energy Engn & New Technol, and This work was partially supported by the ministry of Science, Research and Technology, Islamic Republic of Iran-Department of Scholarships and Overseas Students' Affairs and was carried out in the University of Lyon, institute of Analytical Sciences, UMR-CNRS 5280, France.
Subjects: Pseudomonas sp. (GSN23), Interdigitated microelectrodes, 0211 other engineering and technologies, 02 engineering and technology, 01 natural sciences, chemistry.chemical_compound, [CHIM.ANAL]Chemical Sciences/Analytical chemistry, Chemical Engineering (miscellaneous), Phenol, Phenols, Whole cell biosensor, Waste Management and Disposal, Detection limit, 021110 strategic, defence & security studies, Chromatography, biology, Process Chemistry and Technology, 010401 analytical chemistry, Pseudomonas, biology.organism_classification, Pollution, Bacterial strain, 0104 chemical sciences, Microelectrode, chemistry, 13. Climate action, Biosensor, Bacteria
Abstract: The authors thank Science et Surface company (Lyon-France) for SEM micrographs. Carole Chaix is thanked for fruitful discussions, Carole Farre for SEM observations, Gaetan Raimondi and Colin Minini for preparation and characterization of AuNPs.; International audience; During the last two decades, phenolic compounds have become the subject of intense research in the environmental preservation field. Phenols are included on the lists of priority pollutants in many countries and their determination is required. In this work, a fast, sensitive miniaturized whole cell conductometric biosensor was developed for the determination of phenol. The biosensor assembly was prepared by immobilizing Pseudomonas sp. (GSN23) bacteria, from oil refinery contaminated soils, on the surface of gold interdigitated microelectrodes. The results obtained with conductometric measurement allowed sensitive detection of phenol from 1 to 300 mg L-1 (10-3187 mu M), with a detection limit (LOD) of 0.2 mg L-1 (2 mu M). Furthermore, the bacterial biosensor was successfully applied to the determination of phenol in spiked river samples.Capsule abstract: A conductometric bacterial biosensor based on Pseudomonas sp. (GSN23) bacteria, from oil refinery contaminated soils has been developed. The detection limit for phenol is 2 mu M.
Published: 2018

12. CuS Decorated Functionalized Reduced Graphene Oxide: A Dual Responsive Nanozyme for Selective Detection and Photoreduction of Cr(VI) in an Aqueous Medium

Author: Priyakshree Borthakur, Rabah Boukherroub, Manash R. Das, Sabine Szunerits, Institut d’Électronique, de Microélectronique et de Nanotechnologie (IEMN) - UMR 8520 (IEMN), Ecole Centrale de Lille-Institut supérieur de l'électronique et du numérique (ISEN)-Université de Valenciennes et du Hainaut-Cambrésis (UVHC)-Université de Lille-Centre National de la Recherche Scientifique (CNRS)-Université Polytechnique Hauts-de-France (UPHF), CSIR North East Inst Sci & Technol, Biol Sci & Technol Div, Jorhat 785006, Assam, India, Partenaires INRAE, Institut d’Électronique, de Microélectronique et de Nanotechnologie - UMR 8520 (IEMN), Centrale Lille-Institut supérieur de l'électronique et du numérique (ISEN)-Université de Valenciennes et du Hainaut-Cambrésis (UVHC)-Université de Lille-Centre National de la Recherche Scientifique (CNRS)-Université Polytechnique Hauts-de-France (UPHF), NanoBioInterfaces - IEMN (NBI - IEMN), and Centrale Lille-Institut supérieur de l'électronique et du numérique (ISEN)-Université de Valenciennes et du Hainaut-Cambrésis (UVHC)-Université de Lille-Centre National de la Recherche Scientifique (CNRS)-Université Polytechnique Hauts-de-France (UPHF)-Centrale Lille-Institut supérieur de l'électronique et du numérique (ISEN)-Université de Valenciennes et du Hainaut-Cambrésis (UVHC)-Université de Lille-Centre National de la Recherche Scientifique (CNRS)-Université Polytechnique Hauts-de-France (UPHF)
Subjects: General Chemical Engineering, Oxide, Nanotechnology, 02 engineering and technology, 010402 general chemistry, 01 natural sciences, law.invention, Nanomaterials, chemistry.chemical_compound, law, Environmental Chemistry, [CHIM]Chemical Sciences, ComputingMilieux_MISCELLANEOUS, biology, Aqueous medium, Renewable Energy, Sustainability and the Environment, Graphene, General Chemistry, [CHIM.MATE]Chemical Sciences/Material chemistry, 021001 nanoscience & nanotechnology, 0104 chemical sciences, chemistry, biology.protein, 0210 nano-technology, Biosensor, Peroxidase
Abstract: Design of functional nanomaterials as peroxidase mimics has attracted great attention due to promising applications in numerous fields, including biosensing, cancer diagnostics, immunoassays, envir...
Published: 2019

13. Evaluation of resistivity anisotropy parameters in the Eastern Mitidja basin, Algeria, using azimuthal electrical resistivity tomography

Author: Sid‐Ali Messaoudi, Abdallah Bounif, Roza Aissaoui, Hermann Zeyen, University of Sciences and Technology Houari Boumediene [Alger] (USTHB), Mouloud Mammeri Univ Tizi Ouzou, Fac Biol Sci & Agron Sci, Dept Geol Sci, Tizi Ouzou, Algeria, Université des Sciences et de la Technologie Houari Boumediene [Alger] (USTHB), Géosciences Paris Sud (GEOPS), Université Paris-Sud - Paris 11 (UP11)-Centre National de la Recherche Scientifique (CNRS), and Université Hassiba Ben Bouali de Chlef (UHBC)
Subjects: Regional geology, Hydrogeology, 010504 meteorology & atmospheric sciences, Groundwater flow, Water flow, Hydrogeophysics, Mineralogy, [SDU.STU]Sciences of the Universe [physics]/Earth Sciences, 010502 geochemistry & geophysics, 01 natural sciences, 6. Clean water, Geophysics, Electrical resistivity and conductivity, [SDU]Sciences of the Universe [physics], Electrical resistivity tomography, Anisotropy, Geology, 0105 earth and related environmental sciences
Abstract: International audience; We study electrical anisotropy using azimuthal electrical resistivity tomography (A-ERT) for identifying geological layers and determining the preferential aquifer flow direction. The work presented in this paper aims at calculating the anisotropy coefficient from the inverted resistivity measurements, relating the geophysical results to the site geology and water flow direction, and comparing the results with those obtained from prior studies using hydrogeological approaches. The study area is located in the Eastern Mitidja basin, about 15 km east of Algiers. The work carried out includes three measurement points, totalling 24 ERT profiles. For each point, eight A-ERT profiles, using Wenner-Schlumberger array configuration, were performed every 22.5 degrees around a fixed central point. The data processing includes two-dimensional inversion of each profile, representation of the inverted resistivities at the central points as a function of the azimuth in polar diagrams, and implementation of an inversion program to determine the best fitting azimuthal anisotropy parameters. The origin of electrical anisotropy is probably due to grain alignment, which is often observed in fine-grained sediments such as clays and some sands. This alignment creates a higher electrical resistivity perpendicular to the alignment than parallel to it, which is an indicator for higher hydraulic permeability in the minimum resistivity direction, which corresponds to the preferential groundwater flow direction.
Published: 2019

14. Targeted Proteomics Allows Quantification of Ethylene Receptors and Reveals SlETR3 Accumulation in Never-Ripe Tomatoes

Author: G. Eric Schaller, Nathalie Berger, Yi Chen, Christian Chervin, Samina N. Shakeel, Beenish J. Azhar, Vincent Demolombe, Sonia Hem, Véronique Santoni, Brad M. Binder, Julie Gil, Joanna Nosarzewska, Valérie Rofidal, Mondher Bouzayen, Centre National de la Recherche Scientifique - CNRS (FRANCE), Institut National Polytechnique de Toulouse - INPT (FRANCE), Institut National de la Recherche Agronomique - INRA (FRANCE), Montpellier SupAgro (FRANCE), Dartmouth College (USA), Quaid-i-Azam University (Pakistan), Université de Montpellier (FRANCE), University of Tennessee - UT (USA), Génomique et Biotechnologie des Fruits (GBF), Institut National de la Recherche Agronomique (INRA)-École nationale supérieure agronomique de Toulouse [ENSAT]-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, Biochimie et Physiologie Moléculaire des Plantes (BPMP), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut National de la Recherche Agronomique (INRA)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Dept Biochem, University of Nairobi (UoN), Dept Biol Sci, Univ London Imperial Coll Sci Technol & Med, Department of Biochemistry, Cellular, and Molecular Biology, The University of Tennessee [Knoxville], CSC, INRA, National Science Foundation (IOS-1456487), (MCB-1517032), International Research Support Initiative Program of Higher Education Commission of Pakistan, Institut National Polytechnique de Toulouse - Toulouse INP (FRANCE), Institut National de la Recherche Agronomique (INRA)-Ecole Nationale Supérieure Agronomique de Toulouse-Institut National Polytechnique (Toulouse) (Toulouse INP), Université de Montpellier (UM)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS), UMR 0990 GBF Génomique et Biotechnologie des Fruits, Institut National de la Recherche Agronomique (INRA), Dept Biochem Cellular & Mol Biol, and University of Tennessee
Subjects: 0106 biological sciences, 0301 basic medicine, Proteomics, [SDV.BIO]Life Sciences [q-bio]/Biotechnology, Ethylene, receptor, Quantitative proteomics, hormone, Biotechnologies, Plant Science, Biology, lcsh:Plant culture, tomato, 01 natural sciences, 03 medical and health sciences, chemistry.chemical_compound, ethylene, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, Food and Nutrition, lcsh:SB1-1110, Receptor, Original Research, 2. Zero hunger, Messenger RNA, Vegetal Biology, Wild type, food and beverages, Ripening, 030104 developmental biology, chemistry, Membrane protein, Biochemistry, signaling, Alimentation et Nutrition, [SDV.AEN]Life Sciences [q-bio]/Food and Nutrition, Biologie végétale, 010606 plant biology & botany
Abstract: Ethylene regulates fruit ripening and several plant functions (germination, plant growth, plant-microbe interactions). Protein quantification of ethylene receptors (ETRs) is essential to study their functions, but is impaired by low resolution tools such as antibodies that are mostly nonspecific, or the lack of sensitivity of shotgun proteomic approaches. We developed a targeted proteomic method, to quantify low-abundance proteins such as ETRs, and coupled this to mRNAs analyses, in two tomato lines: Wild Type (WT) and Never-Ripe (NR) which is insensitive to ethylene because of a gain-of-function mutation in ETR3. We obtained mRNA and protein abundance profiles for each ETR over the fruit development period. Despite a limiting number of replicates, we propose Pearson correlations between mRNA and protein profiles as interesting indicators to discriminate the two genotypes: such correlations are mostly positive in the WT and are affected by the NR mutation. The influence of putative post-transcriptional and post-translational changes are discussed. In NR fruits, the observed accumulation of the mutated ETR3 protein between ripening stages (Mature Green and Breaker + 8 days) may be a cause of NR tomatoes to stay orange. The label-free quantitative proteomics analysis of membrane proteins, concomitant to Parallel Reaction Monitoring analysis, may be a resource to study changes over tomato fruit development. These results could lead to studies about ETR subfunctions and interconnections over fruit development. Variations of RNA-protein correlations may open new fields of research in ETR regulation. Finally, similar approaches may be developed to study ETRs in whole plant development and plant-microorganism interactions.
Published: 2019

15. Predicting the metabolic capabilities of Synechococcus elongatus PCC 7942 adapted to different light regimes

Author: Susan S. Golden, Bernhard O. Palsson, Jared T. Broddrick, Denis Jallet, David G. Welkie, Graham Peers, Div Biol Sci, 9500 Gilman Dr, La Jolla, University of California [San Diego] (UC San Diego), University of California-University of California, Dept Bioengn, 9500 Gilman Dr, La Jolla, Laboratoire d'Ingénierie des Systèmes Biologiques et des Procédés (LISBP), Centre National de la Recherche Scientifique (CNRS)-Institut National des Sciences Appliquées - Toulouse (INSA Toulouse), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Institut National de la Recherche Agronomique (INRA), Dept Biol, 251 W Pitkin St, Ft Collins, Colorado State University [Fort Collins] (CSU), U.S. Department of Energy, Office of Science, Office of Biological and Environmental Research (DE-SC0008593), (DE-SC0008595), National Institutes of Health (R35GM118290), CRES Postdoctoral Award from the University of California, San Diego, University of California (UC)-University of California (UC), Institut National de la Recherche Agronomique (INRA)-Institut National des Sciences Appliquées - Toulouse (INSA Toulouse), Institut National des Sciences Appliquées (INSA)-Université de Toulouse (UT)-Institut National des Sciences Appliquées (INSA)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS), and Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS)
Subjects: 0106 biological sciences, Cyanobacteria, Chlorophyll, Synechococcus elongatus, [SDV.BIO]Life Sciences [q-bio]/Biotechnology, Light, Flux balance analysis, Acclimatization, Heterotroph, Bioengineering, Photosynthesis, 01 natural sciences, Applied Microbiology and Biotechnology, Article, Industrial Biotechnology, 03 medical and health sciences, Affordable and Clean Energy, 010608 biotechnology, Bioproducts, Computer Simulation, Butylene Glycols, 030304 developmental biology, Synechococcus, 0303 health sciences, Genome, Cyanobacteria engineering, biology, Phototroph, Pigmentation, Constraint based modeling, biology.organism_classification, Metabolic cost, Metabolic Flux Analysis, Oxygen, Genome-scale modeling, Metabolic Engineering, Environmental science, Biochemical engineering, Energy Metabolism, Biotechnology
Abstract: There is great interest in engineering photoautotrophic metabolism to generate bioproducts of societal importance. Despite the success in employing genome-scale modeling coupled with flux balance analysis to engineer heterotrophic metabolism, the lack of proper constraints necessary to generate biologically realistic predictions has hindered broad application of this methodology to phototrophic metabolism. Here we describe a methodology for constraining genome-scale models of photoautotrophy in the cyanobacteria Synechococcus elongatus PCC 7942. Experimental photophysiology parameters coupled to genome-scale flux balance analysis resulted in accurate predictions of growth rates and metabolic reaction fluxes at low and high light conditions. Additionally, by constraining photon uptake fluxes, we characterized the metabolic cost of excess excitation energy. The predicted energy fluxes were consistent with known light-adapted phenotypes in cyanobacteria. Finally, we leveraged the modeling framework to characterize existing photoautotrophic and photomixtotrophic engineering strategies for 2,3-butanediol production in S. elongatus. This methodology, applicable to genome-scale modeling of all phototrophic microorganisms, can facilitate the use of flux balance analysis in the engineering of light-driven metabolism.
Published: 2019

16. Circum-Mediterranean phylogeography of a bat coupled with past environmental niche modeling: A new paradigm for the recolonization of Europe?

Author: Zoltan L. Nagy, Javier Juste, Öncü Maraci, Suren Gazaryan, Branko Karapandža, Pavel Hulva, Ivan Horáček, Primoz Presetnik, Raşit Bilgin, Dino Scaravelli, Daniela Hamidovic, Carlos F. Ibáñez, Panagiotis Georgiakakis, Benjamin Allegrini, Milan Paunović, Ayşegül Karataş, Mounir Abi-Said, Marcel Uhrin, Norma Fressel, Tomáš Bartonička, Kanat Gürün, Ahmet Karataş, Radek Lučan, Petr Benda, Sébastien J. Puechmaille, Haris Nicolaou, Hugo Rebelo, Rebelo, Hugo -- 0000-0002-7118-4068, Horacek, Ivan -- 0000-0002-8356-5554, Gazaryan, Irina -- 0000-0002-9670-5579, Ibanez, Carlos -- 0000-0003-1181-7641, Puechmaille, Sebastien -- 0000-0001-9517-5775, Lucan, Radek -- 0000-0002-9575-3173, Juste, Javier -- 0000-0003-1383-8462, Gurun, Kanat -- 0000-0002-0433-2593, [Bilgin, Rasit -- Gurun, Kanat -- Maraci, Oncu] Bogazici Univ, Inst Environm Sci, TR-34342 Istanbul, Turkey -- [Rebelo, Hugo] Univ Porto, Ctr Invest Biodiversidade & Recursos Genet, CIBIO InBIO, Campus Agrario Vairdo,R Padre Armando Quintas 11, P-4485661 Vairao, Portugal -- [Rebelo, Hugo] Univ Bristol, Sch Biol Sci, Woodland Rd, Bristol BS8 1UG, Avon, England -- [Puechmaille, Sebastien J.] Univ Coll Dublin, Sch Biol & Environm Sci, Dublin 4, Ireland -- [Puechmaille, Sebastien J.] Ernst Moritz Arndt Univ Greifswald, Inst Zool, D-17489 Greifswald, Germany -- [Puechmaille, Sebastien J.] CERN, GCMP, Toulouse, France -- [Presetnik, Primoz] Ctr Cartog Fauna & Flora, Klunova 3, Ljubljana, Slovenia -- [Benda, Petr -- Hulva, Pavel -- Horacek, Ivan -- Lucan, Radek K.] Charles Univ Prague, Fac Sci, Dept Zool, Vinicna 7, CZ-12844 Prague 2, Czech Republic -- [Benda, Petr] Natl Museum Nat Hist, Dept Zool, Vaclavske Namesti 68, CZ-11579 Prague 1, Czech Republic -- [Hulva, Pavel] Univ Ostrava, Dept Biol & Ecol, Chittussiho 10, Ostrava 71000, Czech Republic -- [Ibanez, Carlos -- Juste, Javier] CSIC, Estn Biol Dotiana, Avda Amer Vespucio S-N, Seville 41092, Spain -- [Hamidovic, Daniela] Croatian Biospeleol Soc, Demetrova 1, Zagreb 10000, Croatia -- [Fressel, Norma] BIUS Biol Student Assoc, Rooseveltov Trg 6, Zagreb 10000, Croatia -- [Karatas, Aysegul -- Karatas, Ahmet] Nigde Univ, Dept Biol, TR-51100 Nigde, Turkey -- [Allegrini, Benjamin] NATURALIA Environm, Gallargues Le Montueux, France -- [Georgiakakis, Panagiotis] Univ Crete, Nat Hist Museum Crete, Knossos Ave,POB 2208, GR-71409 Iraklion, Crete, Greece -- [Gazaryan, Suren] RAS, Inst Ecol Mt Terr, Armand 37A360000, Nakhik, Russia -- [Nagy, Zoltan L.] Fdn Sch, Cluj Napoca 400486, Romania -- [Abi-Said, Mounir] Anim Encounter, Aley, Lebanon -- [Abi-Said, Mounir] Lebanese Univ, Fac Sci 2, AlFanar, Lebanon -- [Bartonicka, Tomas] Masaryk Univ, Dept Bot & Zool, Kotlarska 2, CS-61137 Brno, Czech Republic -- [Nicolaou, Halls] Minist Agr Nat Resources & Environm, Dept Forestry, Pk & Environm Sect, CY-1414 Nicosia, Cyprus -- [Scaravelli, Dino] Univ Bologna, Dept Vet Med Sci, Via Tolara Sopra 50, I-40064 Ozzano Dell Emilia, Italy -- [Karapandza, Branko] Wildlife Conservat Soc Mustela, Belgrade, Serbia -- [Uhrin, Marcel] Pavol Jozef Safarik Univ Kosice, Fac Sci, Inst Biol & Ecol, Moyzesova 11, SK-04001 Kosice, Slovakia -- [Uhrin, Marcel] Czech Univ Life Sci, Fac Forestry & Wood Sci, Dept Forest Protect & Wildlife Management, Kamycka 1176, Prague 16521 6, Czech Republic -- [Paunovic, Milan] Nat Hist Museum, Belgrade, Serbia, 0-Belirlenecek, Istanbul University, The Scientific and Technological Research Council of Turkey, Fundação para a Ciência e a Tecnologia (Portugal), and Ministry of Culture (Czech Republic)
Subjects: 0106 biological sciences, 0301 basic medicine, Mediterranean climate, Refugia, Biology, DNA, Mitochondrial, Models, Biological, 010603 evolutionary biology, 01 natural sciences, Mediterranean Basin, Anatolia, Levant, Middle East, 03 medical and health sciences, Africa, Northern, Refugium (population biology), Peninsula, Chiroptera, Genetics, Animals, Microsatellites, Molecular Biology, Phylogeny, Ecology, Evolution, Behavior and Systematics, geography, geography.geographical_feature_category, Ecology, Miniopterus, Genetic Variation, Miniopterus schreibersii, Last Glacial Maximum, Balkan Peninsula, 15. Life on land, North Africa, biology.organism_classification, Mitochondrial DNA, Environmental niche modelling, Europe, Phylogeography, 030104 developmental biology, Environmental niche modeling
Abstract: WOS: 000375896000026, PubMed ID: 27001602, The isolation of populations in the Iberian, Italian and Balkan peninsulas during the ice ages define four main paradigms that explain much of the known distribution of intraspecific genetic diversity in Europe. In this study we investigated the phylogeography of a wide-spread bat species, the bent-winged bat, Miniopterus schreibersii around the Mediterranean basin and in the Caucasus. Environmental Niche Modeling (ENM) analysis was applied to predict both the current distribution of the species and its distribution during the last glacial maximum (LGM). The combination of genetics and ENM results suggest that the populations of M. schreibersii in Europe, the Caucasus and Anatolia went extinct during the LGM, and the refugium for the species was a relatively small area to the east of the Levantine Sea, corresponding to the Mediterranean coasts of present-day Syria, Lebanon, Israel, and northeastern and northwestern Egypt. Subsequently the species first repopulated Anatolia, diversified there, and afterwards expanded into the Caucasus, continental Europe and North Africa after the end of the LGM. The fossil record in Iberia and the ENM results indicate continuous presence of Miniopterus in this peninsula that most probably was related to the Maghrebian lineage during the LGM, which did not persist afterwards. Using our results combined with similar findings in previous studies, we propose a new paradigm explaining the general distribution of genetic diversity in Europe involving the recolonization of the continent, with the main contribution from refugial populations in Anatolia and the Middle East. The study shows how genetics and ENM approaches can complement each other in providing a more detailed picture of intraspecific evolution. (C) 2016 Elsevier Inc. All rights reserved., Research Fund of Bogazici University, Istanbul [08M104, 09S101, 11Y00P2]; Scientific and Technological Research Council of Turkey, TUBITAK [112T698]; Fundacao para a Ciencia e Tecnologia [IF/0497/2013]; IRCSET-Marie Curie International Mobility Fellowship in Science, Engineering and Technology; Ministry of Culture of the Czech Republic [DKRVO 00023272], We would like to thank Elizabeth Hemond and three anonymous reviewers for their comments on an earlier version of the manuscript. We also would like to thank Simos Demetropoulos, Petros Lymperakis, Dina Kovac, Vida Zrncic, Darija Josic, Sanja Drakulic, Tea Knapic, Yannis Kazoglou, Elena Papadatou, Xavier Gremillet, Monika Podgorelec, Peter Vallo, Thierry Disca, Vincent Prie, members of the Win-timdouine expedition (Morocco), Wassim M. Hizem, Pr. Said Nouira, and the "Direction generale des fork de Tunisie" for their assistance with the fieldwork. This study was supported by grants from the Research Fund of Bogazici University, Istanbul (08M104, 09S101 and 11Y00P2) and the Scientific and Technological Research Council of Turkey, TUBITAK (112T698) to RB, from Fundacao para a Ciencia e Tecnologia (research contract IF/0497/2013) to HR, from the IRCSET-Marie Curie International Mobility Fellowship in Science, Engineering and Technology to SJP, and from the Ministry of Culture of the Czech Republic (# DKRVO 00023272) to PB.
Published: 2016

17. Global trait–environment relationships of plant communities

Author: Esteban Álvarez-Dávila, Maurizio Mencuccini, Zhiyao Tang, Norbert Jürgens, Christopher Baraloto, Robert K. Peet, Jérôme Munzinger, Josep Peñuelas, Peter M. van Bodegom, Erwin Bergmeier, Wim A. Ozinga, Isabelle Aubin, Yadvinder Malhi, Michele De Sanctis, William Farfan-Rios, Marten Winter, Benjamin Blonder, Jordi Sardans, Christian Wirth, Valério D. Pillar, Nicole J. Fenton, Ilona Knollová, Jiří Doležal, Miguel D. Mahecha, Jens Kattge, Marijn Bauters, Zoltán Botta-Dukát, Francesco Maria Sabatini, Jonathan Lenoir, Peter B. Reich, Florian Jansen, Jorcely Barroso, Frédérique Louault, Anne D. Bjorkman, Alvaro G. Gutiérrez, Michael Kleyer, Matteo Dainese, Dylan Craven, Andraž Čarni, Anita K. Smyth, Gunnar Seidler, Idoia Biurrun, Ted R. Feldpausch, Javier Silva Espejo, Helge Bruelheide, Risto Virtanen, Tarek Hattab, Franziska Schrodt, Greg R. Guerin, Sandra Díaz, Anke Jentsch, Jürgen Dengler, Borja Jiménez-Alfaro, J. Hans C. Cornelissen, Kate H. Orwin, Bruno Hérault, Tomáš Černý, Stephan M. Hennekens, Erik Welk, Frederic Lens, Mohammed Abu Sayed Arfin Khan, Jacqueline Loos, Kiril Vassilev, Milan Chytrý, Jonas V. Müller, Christine Römermann, Sylvia Haider, Géraldine Derroire, Marcos Silveira, Greg H. R. Henry, Petr Petřík, Ülo Niinemets, Zygmunt Kącki, Isla H. Myers-Smith, Michael Kessler, Dirk Nikolaus Karger, Evan Weiher, Andrey Yu. Korolyuk, Richard Field, Raquel Thomas, Eric Garnier, Luis Cayuela, Brody Sandel, Cyrille Violle, Jens-Christian Svenning, Corrado Marcenò, Aaron Pérez-Haase, Daniel C. Laughlin, Pedro Higuchi, Jürgen Homeier, Ute Jandt, Fabio Attorre, Karsten Wesche, Norbert Hölzel, Oliver L. Phillips, Ingolf Kühn, Marco Schmidt, Meelis Pärtel, David A. Neill, Maria Sporbert, Mariyana Lyubenova, Oliver Purschke, Arthur Vinicius Rodrigues, Ioannis Tsiripidis, Jan Altman, Institute of Biology/Geobotany and Botanical Garden, Martin-Luther-Universität Halle Wittenberg (MLU), Universität Bayreuth, German Centre for Integrative Biodiversity Research (iDiv), UR Ecol & Dynam Syst Anthropises EDYSAN, UMR CNRS 7058, Université de Picardie Jules Verne (UPJV), Department of Botany and Zoology, Masaryk University, ALTERRA Wageningen, ALTERRA, Max Planck Institute for Biogeochemistry (MPI-BGC), Max-Planck-Gesellschaft, Universidade Federal do Rio Grande do Norte [Natal] (UFRN), Universiteit Leiden [Leiden], Fundación Con-Vida, Ecologie des forêts de Guyane (ECOFOG), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Université des Antilles et de la Guyane (UAG)-AgroParisTech-Centre National de la Recherche Scientifique (CNRS), Universidade Federal do Acre (UFAC), Ecology and Evolutionary Biology [Tucson] (EEB), University of Arizona, National Institute of Biology [Ljubljana], Universidad Rey Juan Carlos [Madrid] (URJC), Vrije Universiteit Amsterdam [Amsterdam] (VU), Royal Institute of Technology (KTH), Department of Microelectronics and Information Technology, Kista Photonics Research Center (KPRC) (KTH), Royal Institute of Technology [Stockholm] (KTH ), AgroParisTech, Centre d’Ecologie Fonctionnelle et Evolutive (CEFE), Université Paul-Valéry - Montpellier 3 (UM3)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-École pratique des hautes études (EPHE)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Ecosystèmes et Ressources Aquatiques (UR03AGRO1), Institut National Agronomique de Tunisie, Westfälische Wilhelms-Universität Münster (WWU), Georg-August-Universität Göttingen, Bayreuth Center of Ecology and Environmental Research (BayCEER), University of Zurich, Landscape Ecology Group, University of Oldenburg, Helmholtz Zentrum für Umweltforschung (UFZ), Netherlands Centre for Biodiversity Naturalis, Institute of Ecology, Leuphana University, Unité Mixte de Recherche sur l'Ecosystème Prairial - UMR (UREP), Institut National de la Recherche Agronomique (INRA)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS), Environmental Change Institute, University of Oxford [Oxford], School of Geosciences [Edinburgh], University of Edinburgh, Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud]), Universidad Estatal Amazonica, Estonian University of Life Sciences, University of Nijmegen, Global Ecology Unit CREAF-CEAB-CSIC, Universitat Autònoma de Barcelona [Barcelona] (UAB), Institute of Ecology and Earth Sciences, University of Tartu, University of Tartu, Department of Forest Resources, University of Minnesota [Twin Cities], University of Minnesota System-University of Minnesota System, Universität Regensburg (REGENSBURG), Universität Regensburg, Centre de Recerca Ecològica i Aplicacions Forestals (CREAF), Dept Biol Sci, Ecoinformat & Biodivers Grp, Aarhus University [Aarhus], Aristotle University of Thessaloniki, Dept Biol, University of Oulu, University of Wisconsin-Eau Claire, Department of Botany, Senckenberg Natural History Museum, Synthesis Centre for Biodiversity Sciences, German Centre for Integrative Biodiversity Research, Universität Leipzig [Leipzig], Philips Research Europe - Hamburg, Sector Medical Imaging Systems, Philips Research, Ecologie et Dynamique des Systèmes Anthropisés - UMR CNRS 7058 (EDYSAN), Université de Picardie Jules Verne (UPJV)-Centre National de la Recherche Scientifique (CNRS), Masaryk University [Brno] (MUNI), Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut National de la Recherche Agronomique (INRA)-Université Paul-Valéry - Montpellier 3 (UPVM)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut de Recherche pour le Développement (IRD [France-Sud]), MARine Biodiversity Exploitation and Conservation (UMR MARBEC), Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS), Georg-August-University [Göttingen], Helmholtz Zentrum für Umweltforschung = Helmholtz Centre for Environmental Research (UFZ), Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Institut National de la Recherche Agronomique (INRA)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD [France-Sud]), Universitat Autònoma de Barcelona (UAB), University of Minnesota [Twin Cities] (UMN), Martin-Luther-University Halle-Wittenberg, Ecologie et Dynamique des Systèmes Anthropisés (EDYSAN), Wageningen University and Research Centre [Wageningen] (WUR), Chercheur indépendant, Department of Ecological Modelling [UFZ Leipzig], Helmholtz Centre for Environmental Research (UFZ), Laboratoire des Sciences de l'Environnement Marin (LEMAR) (LEMAR), Institut de Recherche pour le Développement (IRD)-Institut Universitaire Européen de la Mer (IUEM), Institut de Recherche pour le Développement (IRD)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS), Hawkesbury Institute for the Environment [Richmond] (HIE), Western Sydney University (UWS), Bruelheide H., Dengler J., Purschke O., Lenoir J., Jimenez-Alfaro B., Hennekens S.M., Botta-Dukat Z., Chytry M., Field R., Jansen F., Kattge J., Pillar V.D., Schrodt F., Mahecha M.D., Peet R.K., Sandel B., van Bodegom P., Altman J., Alvarez-Davila E., Arfin Khan M.A.S., Attorre F., Aubin I., Baraloto C., Barroso J.G., Bauters M., Bergmeier E., Biurrun I., Bjorkman A.D., Blonder B., Carni A., Cayuela L., Cerny T., Cornelissen J.H.C., Craven D., Dainese M., Derroire G., De Sanctis M., Diaz S., Dolezal J., Farfan-Rios W., Feldpausch T.R., Fenton N.J., Garnier E., Guerin G.R., Gutierrez A.G., Haider S., Hattab T., Henry G., Herault B., Higuchi P., Holzel N., Homeier J., Jentsch A., Jurgens N., Kacki Z., Karger D.N., Kessler M., Kleyer M., Knollova I., Korolyuk A.Y., Kuhn I., Laughlin D.C., Lens F., Loos J., Louault F., Lyubenova M.I., Malhi Y., Marceno C., Mencuccini M., Muller J.V., Munzinger J., Myers-Smith I.H., Neill D.A., Niinemets U., Orwin K.H., Ozinga W.A., Penuelas J., Perez-Haase A., Petrik P., Phillips O.L., Partel M., Reich P.B., Romermann C., Rodrigues A.V., Sabatini F.M., Sardans J., Schmidt M., Seidler G., Silva Espejo J.E., Silveira M., Smyth A., Sporbert M., Svenning J.-C., Tang Z., Thomas R., Tsiripidis I., Vassilev K., Violle C., Virtanen R., Weiher E., Welk E., Wesche K., Winter M., Wirth C., Jandt U., Systems Ecology, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), and Institut de Recherche pour le Développement (IRD [France-Sud])-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)
Subjects: 0106 biological sciences, [SDV]Life Sciences [q-bio], Bos- en Landschapsecologie, 01 natural sciences, Ecosystem services, forests, grassland, life history traits, plant dispersal, plants, Forest and Landscape Ecology, Environmental planning, OT PB Vredepeel, [SDV.EE]Life Sciences [q-bio]/Ecology, environment, diversité fonctionnelle, Ecology, Vegetation, Plants, Grassland, économie foliaire, Biogeography, Community Ecology, Ecosystems Research, [SDE]Environmental Sciences, Trait, Vegetatie, Bos- en Landschapsecologie, F40 - Écologie végétale, F60 - Physiologie et biochimie végétale, [SDE.MCG]Environmental Sciences/Global Changes, education, [SDV.BID]Life Sciences [q-bio]/Biodiversity, Life History Trait, Biology, Sustainability Science, 010603 evolutionary biology, température, Life Science, prédiction, Ecosystem, Forest, 577: Ökologie, Vegetatie, Ecology, Evolution, Behavior and Systematics, climat, Plant Dispersal, Niche differentiation, Plant community, 15. Life on land, Disturbance (ecology), Vegetation, Forest and Landscape Ecology, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Scale (map), 010606 plant biology & botany
Abstract: International audience; Plant functional traits directly affect ecosystem functions. At the species level, trait combinations depend on trade-offs representing different ecological strategies, but at the community level trait combinations are expected to be decoupled from these trade-offs because different strategies can facilitate co-existence within communities. A key question is to what extent community-level trait composition is globally filtered and how well it is related to global versus local environmental drivers. Here, we perform a global, plot-level analysis of trait-environment relationships, using a database with more than 1.1 million vegetation plots and 26,632 plant species with trait information. Although we found a strong filtering of 17 functional traits, similar climate and soil conditions support communities differing greatly in mean trait values. The two main community trait axes that capture half of the global trait variation (plant stature and resource acquisitiveness) reflect the trade-offs at the species level but are weakly associated with climate and soil conditions at the global scale. Similarly, within-plot trait variation does not vary systematically with macro-environment. Our results indicate that, at fine spatial grain, macro-environmental drivers are much less important for functional trait composition than has been assumed from floristic analyses restricted to co-occurrence in large grid cells. Instead, trait combinations seem to be predominantly filtered by local-scale factors such as disturbance, fine-scale soil conditions, niche partitioning and biotic interactions.
Published: 2018

18. A multifaceted aggregation and toxicity assessment study of sol–gel-based TiO2nanoparticles during textile wastewater treatment

Author: Burak Yuzer, Süreyya Meriç, M. Iberia Aydin, Huseyin Selcuk, Fehiman Çiner, Marco Guida, Burcu Aktan, Burak, Yuzer, Guida, Marco, Fehiman, Ciner, Burcu, Aktan, M., Iberia Aydin, Sureyya, Meric, Huseyin, Selcuk, 0-Belirlenecek, Aydin, Muhammed Iberia -- 0000-0003-1826-8200, guida, mco -- 0000-0001-6805-0408, Meric, Sureyya -- 0000-0002-2491-2755, and [Yuzer, Burak -- Aydin, M. Iberia -- Selcuk, Huseyin] Istanbul Univ, Fac Engn, Dept Environm Engn, Istanbul, Turkey -- [Guida, Marco] Univ Naples Federico II, Dept Biol Sci, Sect Physiol & Hyg, Ecotoxicol Res Lab UNINA ERL12,Federico 2, I-80134 Naples, Italy -- [Ciner, Fehiman] Nigde Univ, Fac Engn, Dept Environm Engn, Nigde, Turkey -- [Aktan, Burcu] Gumussu Aritma AS Gumusler, Denizli, Turkey -- [Meric, Sureyya] Namik Kemal Univ, Fac Engn, Dept Environm Engn, Tekirdag, Turkey
Subjects: Nanoparticle, Ocean Engineering, 02 engineering and technology, 010501 environmental sciences, 01 natural sciences, Absorbance, Aggregation, chemistry.chemical_compound, Ecotoxicity, 0105 earth and related environmental sciences, Water Science and Technology, Sol-gel, Oxygen uptake rate, Chemistry, Alum, Textile wastewater, technology, industry, and agriculture, 021001 nanoscience & nanotechnology, Pollution, Treatment, Wastewater, Environmental chemistry, Titanium dioxide, Nanoparticles, Sewage treatment, Particle size, 0210 nano-technology, Nuclear chemistry
Abstract: WOS: 000368037100022, Innovative textiles have been concern of emerging risk of nanoparticles (NPs) to human and environment. This study aimed to investigate the aggregation, removal and biological, and ecotoxicological effects of sol-gel-based TiO2 NPs while the treatment of textile wastewater. Fe(II) and alum coagulants were applied for the removal of spiked TiO2 NPs from textile wastewater. Particle size distribution, absorbance values (UV-vis range), and residual TiO2 NPs were followed to define aggregation mechanism, including pH variation during treatment of wastewater. The effect of TiO2 on activated sludge treatment was followed by monitoring of oxygen uptake rate (OUR). Ecotoxicity of sol-gel and coagulated samples was observed by Ceriodaphnia magna immobilization test. Adjustment of pH to 8 enlarged mean particle size distribution of sol-gel-based TiO2 NPs from 30 to 450nm. After alum and Fe(II) coagulations, average particle size distributions were observed to be 650 and 960nm, respectively. Coagulation with alum and Fe(II) resulted over >95% removal of TiO2 from biologically treated textile wastewater (BTTWW). The value for residual TiO2 concentration in BTTWW was reduced from 120g/L to around 8g/L TiO2 NPs exhibited slight/no toxicity on the OUR while toxicity to Ceriodaphnia dubia increased in some coagulated samples, most probably due to higher residual coagulant concentrations., Scientific and Technological Research Council of Turkey (TUBITAK) [108M211], This study was supported by the Scientific and Technological Research Council of Turkey (TUBITAK) (Research Grant # 108M211).
Published: 2015

19. Stay or go – how topographic complexity influences alpine plant population and community responses to climate change

Author: Jens-Christian Svenning, Hans Henrik Bruun, James D. M. Speed, Kari Anne Bråthen, Øystein H. Opedal, Ann Milbau, Bente J. Graae, Kristoffer Hylander, Hilary H. Birks, Kristine Bakke Westergaard, Inger Greve Alsos, Rasmus Ejrnæs, Kari Klanderud, Wolf L. Eiserhardt, Johan Ehrlén, H. John B. Birks, Vigdis Vandvik, W. Scott Armbruster, Jonathan Lenoir, University of Bergen (UiB), Dept Biol Sci, Ecoinformat & Biodivers Grp, Aarhus University [Aarhus], Stockholm University, Ecologie et Dynamique des Systèmes Anthropisés - UMR CNRS 7058 (EDYSAN), and Université de Picardie Jules Verne (UPJV)-Centre National de la Recherche Scientifique (CNRS)
Subjects: 0106 biological sciences, 010504 meteorology & atmospheric sciences, [SDE.MCG]Environmental Sciences/Global Changes, Population, Niche, Microclimate, Climate change, Plant Science, [SDV.BID]Life Sciences [q-bio]/Biodiversity, adaptation, Refugia, Biology, 010603 evolutionary biology, 01 natural sciences, refugia, VDP::Mathematics and natural science: 400::Zoology and botany: 480, Realized niche width, Adaptation, education, dispersal, resilience, Ecology, Evolution, Behavior and Systematics, 0105 earth and related environmental sciences, Ecological niche, [SDV.EE]Life Sciences [q-bio]/Ecology, environment, education.field_of_study, Community, Resilience, Ecology, Dispersal, 15. Life on land, niche, 13. Climate action, Biological dispersal, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, microclimate, VDP::Matematikk og Naturvitenskap: 400::Zoologiske og botaniske fag: 480
Abstract: Accepted manuscript version. Published version available at https://doi.org/10.1016/j.ppees.2017.09.008. Accepted manuscript version, licensed CC BY-NC-ND 4.0. In the face of climate change, populations have two survival options − they can remain in situ and tolerate the new climatic conditions (“stay”), or they can move to track their climatic niches (“go”). For sessile and small-stature organisms like alpine plants, staying requires broad climatic tolerances, realized niche shifts due to changing biotic interactions, acclimation through plasticity, or rapid genetic adaptation. Going, in contrast, requires good dispersal and colonization capacities. Neither the magnitude of climate change experienced locally nor the capacities required for staying/going in response to climate change are constant across landscapes, and both aspects may be strongly affected by local microclimatic variation associated with topographic complexity. We combine ideas from population and community ecology to discuss the effects of topographic complexity in the landscape on the immediate “stay” or “go” opportunities of local populations and communities, and on the selective pressures that may have shaped the stay or go capacities of the species occupying contrasting landscapes. We demonstrate, using example landscapes of different topographical complexity, how species’ thermal niches could be distributed across these landscapes, and how these, in turn, may affect many population and community ecological processes that are related to adaptation or dispersal. Focusing on treeless alpine or Arctic landscapes, where temperature is expected to be a strong determinant, our theorethical framework leads to the hypothesis that populations and communities of topographically complex (rough and patchy) landscapes should be both more resistant and more resilient to climate change than those of topographically simple (flat and homogeneous) landscapes. Our theorethical framework further points to how meta-community dynamics such as mass effects in topographically complex landscapes and extinction lags in simple landscapes, may mask and delay the long-term outcomes of these landscape differences under rapidly changing climates.
Published: 2017

20. Temporal changes in bird functional diversity across the United States

Author: Jean-Yves Barnagaud, Pierre Gaüzère, Jens-Christian Svenning, Karine Princé, Benjamin Zuckerberg, Centre d’Ecologie Fonctionnelle et Evolutive (CEFE), Université Paul-Valéry - Montpellier 3 (UPVM)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Aarhus University [Aarhus], Institut des Sciences de l'Evolution de Montpellier (UMR ISEM), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Montpellier (UM)-Institut de recherche pour le développement [IRD] : UR226-Centre National de la Recherche Scientifique (CNRS), Department of Forest and Wildlife Ecology, Research Institute for Forestry and Forest Ecology of Rhineland-Palatinate, Centre d'Ecologie et des Sciences de la COnservation (CESCO), Muséum national d'Histoire naturelle (MNHN)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS), Ecosystèmes forestiers (UR EFNO), Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-École pratique des hautes études (EPHE)-Université de Montpellier (UM)-Institut de recherche pour le développement [IRD] : UR226-Centre National de la Recherche Scientifique (CNRS), Department of Forest and Wildlife Ecology - University of Wisconsin-Madison, Department of Forest and Wildlife - University of Wisconsin-Madison, Dept Biol Sci, Ecoinformat & Biodivers Grp, Université Paul-Valéry - Montpellier 3 (UPVM)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-École pratique des hautes études (EPHE), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-École pratique des hautes études (EPHE), and Université Paris 1 Panthéon-Sorbonne (UP1)
Subjects: 0106 biological sciences, BIOTIC HOMOGENIZATION, MASS EXTINCTION, Time Factors, Range (biology), NDVI, Climate, Biodiversity, Ecological traits, Biology, 010603 evolutionary biology, 01 natural sciences, Birds, PHYLOGENETIC DIVERSITY, Abundance (ecology), BIODIVERSITY CHANGE, Animals, CONTRASTING CHANGES, Ecology, Evolution, Behavior and Systematics, ComputingMilieux_MISCELLANEOUS, Community dynamics, Ecology, 010604 marine biology & hydrobiology, SPECIES RICHNESS, LAND-USE INTENSIFICATION, Breeding bird survey, NORTH-AMERICA, 15. Life on land, United States, Phylogenetic diversity, Non-linear trends, Habitat, Alpha diversity, Species richness, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, COMMUNITIES, human activities, TRAITS
Abstract: International audience; Global changes are modifying the structure of species assemblages, but the generality of resulting diversity patterns and of their drivers is poorly understood. Any such changes can be detected and explained by comparing temporal trends in taxonomic and functional diversity over broad spatial extents. In this study, we addressed three complementary questions: How did bird taxonomic and functional diversity change over the past 40 years in the conterminous United States? Are these trends non-linear? Can temporal variations in functional diversity be explained by broad-scale changes in climate and vegetation productivity? We quantified changes in taxonomic and functional diversity for 807 bird assemblages over the past four decades (1970-2011) considering a suite of 16 ecological traits for 435 species. We found increases in local bird species richness and taxonomic equitability that plateaued in the early 2000's while total abundance declined over the whole period. Functional richness, the total range of traits in an assemblage, increased due to the rising prevalence of species with atypical life-history strategies and under-represented habitat or trophic preferences. However, these species did not trigger major changes in the functional composition of bird assemblages. Inter-annual variations in climate and primary productivity explained the richness of bird life-history traits in local assemblages, suggesting that these traits are influenced by broad-scale environmental factors, while others respond more to more local drivers. Our results highlight that a comparative analysis of the multiple facets of functional diversity can raise novel insights on processes underlying temporal trends in biodiversity.
Published: 2017

21. Possible amphi-Atlantic dispersal of Scyllarus lobsters (Crustacea: Scyllaridae): molecular and larval evidence

Author: G. Guerao, Romana Capaccioni-Azzati, Ferran Palero, Paul F. Clark, José A. Cuesta, Rebeca Genis-Armero, J. Ignacio González-Gordillo, Laure Corbari, Pere Abelló, Sch Biol Sci, Dept Zool, University of Valencia, Independent, Inst Ciencies, Estación Experimental del Zaidín, Inst Univ Invest Marina, CEIMAR, University of Cadiz, Inst Ciencias Marinas Andalucia, Spanish National Research Council (CSIC), Institut de Systématique, Evolution, Biodiversité (ISYEB ), Muséum national d'Histoire naturelle (MNHN)-Université Pierre et Marie Curie - Paris 6 (UPMC)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS), Dept Life Sci, Institut Sophia Agrobiotech (ISA), Institut National de la Recherche Agronomique (INRA)-Université Nice Sophia Antipolis (1965 - 2019) (UNS), COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-Centre National de la Recherche Scientifique (CNRS), CTM2013-48163, CTM2012-39587-C04-02, DK-TAF-4873 FR-TAF-5980, Biología, Muséum national d'Histoire naturelle (MNHN)-École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-Université Nice Sophia Antipolis (... - 2019) (UNS), COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-Institut National de la Recherche Agronomique (INRA), Muséum national d'Histoire naturelle (MNHN)-Université Pierre et Marie Curie - Paris 6 (UPMC)-École pratique des hautes études (EPHE)-Centre National de la Recherche Scientifique (CNRS), Institut Sophia Agrobiotech [Sophia Antipolis] (ISA), Institut National de la Recherche Agronomique (INRA)-Université Nice Sophia Antipolis (... - 2019) (UNS), Université Côte d'Azur (UCA)-Université Côte d'Azur (UCA)-Centre National de la Recherche Scientifique (CNRS), European Commission, Generalitat de Catalunya, and Ministerio de Economía y Competitividad (España)
Subjects: 0106 biological sciences, Systematics, phylogénétique, water blooms, Arthropoda, planktonic larval duration, 010603 evolutionary biology, 01 natural sciences, DNA barcoding, Phyllosoma, Crustacea, Decapoda, Animalia, amphi-Atlantic distribution, développement larvaire, 14. Life underwater, Scyllarus, analyse moléculaire, Malacostraca, homarus, Ecology, Evolution, Behavior and Systematics, Taxonomy, biology, Ecology, prolifération planctonique, 010604 marine biology & hydrobiology, Slipper lobster, Scyllaridae, Biodiversity, dispersion des populations, crustacea, biology.organism_classification, Crustacean, phylogenetics, [SDV.BA.ZI]Life Sciences [q-bio]/Animal biology/Invertebrate Zoology, Sister group, Biological dispersal, Animal Science and Zoology, atlantique, atlantic
Abstract: 14 pages, 6 figures, 1 table, DNA methods may contribute to better understand larval dispersal of marine lobsters. The molecular analysis of phyllosoma specimens from the East Atlantic facilitated for the first time here the description of Scyllarus subarctus Crosnier, 1970 larvae. The identification of S. subarctus phyllosomae from Cabo Verde confirmed that this species has a much wider geographic distribution than previously thought. Moreover, the phylogenetic analyses placed S. depressus from the Western Atlantic together with the African species S. subarctus, instead of other American Scyllarus. In fact, S. depressus and S. subarctus formed a strongly supported clade with comparatively low genetic differentiation, suggesting the possibility that they might be recently-diverged sister taxa with an amphi-Atlantic distribution. Support for this is provided by the examination of S. subarctus larvae and the lack of any qualitative character that would allow for differentiation between the adults of S. subarctus and S. depressus. The results obtained highlight the challenges of current Scyllarus systematics and the need for further research on Atlantic slipper lobsters, This research was funded by projects CHALLENGEN (CTM2013-48163) and MAFIA (CTM2012-39587-C04-02) of the Spanish Government and EU-Synthesys grants (DK-TAF-4873: Morphological study of Achelata lobsters and phyllosoma larvae from Danish collections and FR-TAF-5980: Description of phyllosoma stages of West-African lobster species). FP acknowledges project FP7 Marie Curie IAPP #324475 ‘Colbics’ of the European Union and a post-doctoral contract funded by the Beatriu de Pinos Programme of the Generalitat de Catalunya.
Published: 2017

22. Mixing of porpoise ecotypes in South Western UK waters revealed by genetic profiling

Author: Michael C. Fontaine, Rob Deaville, Paul Jepson, Nicolas Ray, Sylvain Piry, Nicholas J. Davison, Simon J. Goodman, Olivier Thatcher, Andrew Brownlow, Fontaine lab, Sch Biol, Fac Biol Sci, University of Leeds, Groningen Inst Evolutionary Life Sci GELIFES, University of Groningen, Inst. Zool., Zoological Society of London, Dept. Zool., University of Cambridge, EnviroSPACE Laboratory, Institute for Environmental Sciences [Geneva] (ISE), University of Geneva [Switzerland]-University of Geneva [Switzerland], Centre de Biologie pour la Gestion des Populations (UMR CBGP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Université de Montpellier (UM)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Scottish Marine Animal Stranding Scheme, SRUC Veterinary Service, Scotland's Rural College (SRUC), Animal and Plant Health Agency [Addlestone, UK] (APHA), EnviroSPACE Laboratory, Institute for Environmental Sciences, University of Geneva, SRUC, Animal and Plant Health Agency (APHA), Fontaine, Michael C., Goodman, Simon J., and Université de Genève = University of Geneva (UNIGE)-Université de Genève = University of Geneva (UNIGE)
Subjects: 0106 biological sciences, 0301 basic medicine, [SDV]Life Sciences [q-bio], Climate change, Phocoena, Admixture, Biology, 010603 evolutionary biology, 01 natural sciences, Molecular ecology, 03 medical and health sciences, biology.animal, ecotype specialization, 14. Life underwater, lcsh:Science, molecular ecology, dispersal, 030304 developmental biology, Isolation by distance, ddc:333.7-333.9, 0303 health sciences, Multidisciplinary, Ecotype, Ecology, Biology (Whole Organism), continuous population, Pelagic zone, Dispersal, Continuous population, biology.organism_classification, 030104 developmental biology, climate change, Ecotype specialization, Genetic structure, Microsatellite, Biological dispersal, admixture, lcsh:Q, Bay, Porpoise, Research Article
Abstract: Contact zones between ecotypes are windows for understanding how species may react to climate changes. Here, we analysed the fine-scale genetic and morphological variation in harbour porpoises (Phocoena phocoena) around the UK by genotyping 591 stranded animals at nine microsatellite loci. The data were integrated with a prior study to map at high resolution the contact zone between two previously identified ecotypes meeting in the northern Bay of Biscay. Clustering and spatial analyses revealed that UK porpoises are derived from two genetic pools with porpoises from the southwestern UK being genetically differentiated, and having larger body sizes compared to those of other UK areas. Southwestern UK porpoises showed admixed ancestry between southern and northern ecotypes with a contact zone extending from the northern Bay of Biscay to the Celtic Sea and Channel. Around the UK, ancestry blends from one genetic group to the other along a southwest--northeast axis, correlating with body size variation, consistent with previously reported morphological differences between the two ecotypes. We also detected isolation by distance among juveniles but not in adults, suggesting that stranded juveniles display reduced intergenerational dispersal. The fine-scale structure of this admixture zone raises the question of how it will respond to future climate change and provides a reference point for further study.
Published: 2017

23. Ag and Au nanoparticles/reduced graphene oxide composite materials: Synthesis and application in diagnostics and therapeutics

Author: Aravind Kumar Rengan, Manash R. Das, Rabah Boukherroub, Surya Prakash Singh, Sabine Szunerits, Gitashree Darabdhara, CSIR North East Inst Sci & Technol, Biol Sci & Technol Div, Jorhat 785006, Assam, India, Partenaires INRAE, Institut d’Électronique, de Microélectronique et de Nanotechnologie - UMR 8520 (IEMN), Centrale Lille-Institut supérieur de l'électronique et du numérique (ISEN)-Université de Valenciennes et du Hainaut-Cambrésis (UVHC)-Université de Lille-Centre National de la Recherche Scientifique (CNRS)-Université Polytechnique Hauts-de-France (UPHF), NanoBioInterfaces - IEMN (NBI - IEMN), and Centrale Lille-Institut supérieur de l'électronique et du numérique (ISEN)-Université de Valenciennes et du Hainaut-Cambrésis (UVHC)-Université de Lille-Centre National de la Recherche Scientifique (CNRS)-Université Polytechnique Hauts-de-France (UPHF)-Centrale Lille-Institut supérieur de l'électronique et du numérique (ISEN)-Université de Valenciennes et du Hainaut-Cambrésis (UVHC)-Université de Lille-Centre National de la Recherche Scientifique (CNRS)-Université Polytechnique Hauts-de-France (UPHF)
Subjects: Silver, Materials science, Biomedical Engineering, Metal Nanoparticles, Nanoparticle, Nanotechnology, Biosensing Techniques, 02 engineering and technology, 010402 general chemistry, 01 natural sciences, Nanomaterials, law.invention, Drug Delivery Systems, Colloid and Surface Chemistry, law, Humans, [CHIM]Chemical Sciences, Ceramic, Physical and Theoretical Chemistry, ComputingMilieux_MISCELLANEOUS, Nanocomposite, Graphene, Electrochemical Techniques, [CHIM.MATE]Chemical Sciences/Material chemistry, Surfaces and Interfaces, Phototherapy, Photothermal therapy, 021001 nanoscience & nanotechnology, 0104 chemical sciences, visual_art, visual_art.visual_art_medium, Nanomedicine, Graphite, Gold, 0210 nano-technology, Hybrid material
Abstract: The exceptional electrical, thermal, optical and mechanical properties have made two dimensional sp2 hybridized graphene a material of choice in both academic as well as industrial research. In the last few years, researchers have devoted their efforts towards the development of graphene/polymer, graphene/metal nanoparticle and graphene/ceramic nanocomposites. These materials display excellent mechanical, electrical, thermal, catalytic, magnetic and optical properties which cannot be obtained separately from the individual components. Fascinating physical and chemical properties are displayed by noble metal nanomaterials and thus they represent model building blocks for modifying nanoscale structures for diverse applications extending from catalysis, optics to nanomedicine. Insertion of noble metal (Au, Ag) nanoparticles (NPs) into chemically derived graphene is thus of primary importance to open new avenues for both materials in various fields where the specific properties of each material act synergistically to provide hybrid materials with exceptional performances. This review attempts to summarize the different synthetic procedures for the preparation of Ag and Au NPs/reduced graphene oxide (rGO) composites. The synthesis processes of metal NPs/rGO composites are categorised into in-situ and ex-situ techniques. The in-situ approach consists of simultaneous reduction of metal salts and GO to obtain metal NPs/rGO nanocomposite materials, while in the ex-situ process, the metal NPs of desired size and shape are first synthesized and then transferred onto the GO or rGO matrix. The application of the Ag NPs and Au NPs/rGO composite materials in the area of biomedical (drug delivery and photothermal therapy) and biosensing are the focus of this review article.
Published: 2019

24. Mode of action of Pseudomonas fluorescens strain CL145A, a lethal control agent of dreissenid mussels (Bivalvia: Dreissenidae)

Author: Michael J. Gaylo, Denise A. Mayer, Laure Giamberini, Daniel P. Molloy, SUNY Albany, Dept Biol Sci, Albany, NY 12222 USA, University at Albany [SUNY], State University of New York (SUNY)-State University of New York (SUNY), New York State Education Department, Laboratoire Interdisciplinaire des Environnements Continentaux (LIEC), Institut national des sciences de l'Univers (INSU - CNRS)-Observatoire Terre et Environnement de Lorraine (OTELo), Institut national des sciences de l'Univers (INSU - CNRS)-Université de Lorraine (UL)-Centre National de la Recherche Scientifique (CNRS)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Lorraine (UL)-Centre National de la Recherche Scientifique (CNRS)-Institut Ecologie et Environnement (INEE), and Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)
Subjects: 0106 biological sciences, Hemocytes, animal structures, [SDV]Life Sciences [q-bio], Dreissena polymorpha, Pseudomonas fluorescens, 01 natural sciences, Dreissena, Microbiology, Necrosis, 03 medical and health sciences, Animals, Hemocyte infiltration, Pest Control, Biological, Mode of action, Ecology, Evolution, Behavior and Systematics, 030304 developmental biology, 0303 health sciences, biology, 010604 marine biology & hydrobiology, Stomach, Dreissenidae, Zebra mussel, Mussel, Sloughing, biology.organism_classification, Bivalvia, Biological control, [SDE]Environmental Sciences, Biopesticide, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Digestive System
Abstract: International audience; Pseudomonas fluorescens strain CL145A (Pf-CL145A) has demonstrated promise as an efficacious and selective agent for the control of macrofouling Dreissena spp. mussels. Herein, we report trials to investigate the mode of action of this biocontrol agent against Dreissena polymorpha, the zebra mussel. Exposure to dead Pf-CL145A cells achieved the same temporal pattern and percentage mussel mortality as did live cells, thereby excluding infection as the possible lethal mode of action. Histological analysis revealed pathologies consistent with the cause of death being intoxicating natural products associated with Pf-CL145A cells. Irrespective of whether the mussels were exposed to live or dead Pf-CL145A cells, examination of tissues from histological sections revealed that: (1) at the end of the 24-h treatment period there was massive hemocyte infiltration into the lumina of both the digestive gland and stomach; and (2) mussel deaths occurred following lysis and necrosis of the digestive gland and sloughing of stomach epithelium. These trials provide strong evidence that the lethal mode of action of Pf-CL145A is intoxication.
Published: 2013

25. Occurrence of zebra mussel parasites: Modelling according to contamination in France and the USA

Author: Laetitia Minguez, Laure Giamberini, François Guérold, Daniel P. Molloy, Simon Devin, Laboratoire Interdisciplinaire des Environnements Continentaux (LIEC), Institut national des sciences de l'Univers (INSU - CNRS)-Observatoire Terre et Environnement de Lorraine (OTELo), Institut national des sciences de l'Univers (INSU - CNRS)-Université de Lorraine (UL)-Centre National de la Recherche Scientifique (CNRS)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Lorraine (UL)-Centre National de la Recherche Scientifique (CNRS)-Institut Ecologie et Environnement (INEE), Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), SUNY Albany, Dept Biol Sci, Albany, NY 12230 USA, University at Albany [SUNY], and State University of New York (SUNY)-State University of New York (SUNY)
Subjects: 0106 biological sciences, Pollution, [SDV]Life Sciences [q-bio], Health, Toxicology and Mutagenesis, media_common.quotation_subject, Fresh Water, 010501 environmental sciences, Toxicology, Models, Biological, 01 natural sciences, Freshwater ecosystem, Dreissena, Water Pollution, Chemical, Animals, Parasites, Ecosystem, 14. Life underwater, Ciliophora, Organism, 0105 earth and related environmental sciences, media_common, Pollutant, Ciliate, biology, Ecology, 010604 marine biology & hydrobiology, General Medicine, biology.organism_classification, United States, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, Metals, [SDE]Environmental Sciences, Zebra mussel, France, Microparasite, Water Pollutants, Chemical, MESH: Dreissena polymorpha, Microparasites, Mode, Environmental Monitoring
Abstract: International audience; Parasites can be reliable tool in assessing the effects of ecosystem disturbances. However, they can respond in different ways and any changes in assemblages are not easily predictable. Descriptive modelling could be a first step since providing information on the relative importance of a pollutant on parasite occurrence. We chose the zebra mussel, as test organism and twelve sites in France and the United States. Contaminants had not the same impact on microparasite occurrence. Metals enhanced the infection, except zinc associated only with higher prevalence of the commensal ciliate Conchophthirus acuminatus. We should note that Rickettsiales-like organism infection is higher at higher Ni and Cr concentrations. Models indicated also that the most polluted sites were also those with higher rates of co-infections. Therefore, the continuous contamination of freshwater ecosystems implies a significant risk promoting the development of parasites that may affect bivalve populations and other species belonging to their life-cycle.
Published: 2013

26. Host plants and reproductive behaviour in the African maize stemborer,Busseola fusca(Fuller 1901) (Lepidoptera: Noctuidae)

Author: Tassadit Smail, Brigitte Frerot, Anne Emmanuelle Felix, Physiologie de l'Insecte : Signalisation et Communication (PISC), Institut National de la Recherche Agronomique (INRA)-Université Pierre et Marie Curie - Paris 6 (UPMC)-AgroParisTech, Physiologie de l'Insecte, Signalisation et Communication [Versailles] (PISC), Institut National de la Recherche Agronomique (INRA), Sch Biol Sci, and Plymouth University
Subjects: [SDV.SA]Life Sciences [q-bio]/Agricultural sciences, 0106 biological sciences, Integrated pest management, animal structures, Busseola fusca, DIVERSITY, wind tunnel, ARTIFICIAL DIET, ATTRACTION, NATAL EXPERIENCE, 010603 evolutionary biology, 01 natural sciences, Lepidoptera genitalia, Stemborer, STEM BORER, Botany, PHEROMONE, Mating, male attraction, HABITAT, Ecology, Evolution, Behavior and Systematics, biology, Host (biology), fungi, food and beverages, MOTH, biology.organism_classification, female calling behaviour, ASSECTELLA, 010602 entomology, pest management, Insect Science, Noctuidae, PEST analysis, RESPONSES
Abstract: Summary Busseola fusca Fuller (Lepidoptera: Noctuidae) is the major pest on maize and sorghum crops in sub-Saharan Africa. As a specialised phytophagous insect, survival of B. fusca larvae depends on the presence of the cultivated host plants. Taking into account recent evidence of host-plant presence acting on pheromone perception and production in Lepidoptera, we investigated the effect of different host and non-host plants on reproductive behaviour in B. fusca: female calling behaviour and male attraction by female. Results showed that both behaviours did not change in presence of plants, whether they are larvae host plant or oviposition repellent plant. Native host associated mating remains unknown for this species, but results are likely to favour the hypothesis that mating behaviour is not related to the presence of cultivated or putative native host plants.
Published: 2013

27. Photography-based taxonomy is inadequate, unnecessary, and potentially harmful for biological sciences

Author: Fenton P.D. Cotterill, Fernanda P. Werneck, Stephen W. Chordas, Enrique González-Soriano, Pierangelo Luporini, Santiago Claramunt, Santosh Kumar, Adriano B. Kury, Marcelo José Sturaro, Atsushi Tominaga, Marcos Gonçalves Lhano, Giulio Cuccodoro, Bernardo F. Santos, Alejandro Oceguera-Figueroa, Klaus Henle, Giovanni B. Delmastro, Thibaut Delsinne, Jeremy A. Miller, Thomas Ziegler, Ishan Agarwal, Rodrigo M. Feitosa, Robert C. Glotzhober, Giuliano Doria, Adeline Soulier-Perkins, Diego Baldo, Valéria da Cunha Tavares, Danilo Pacheco Cordeiro, Eli Greenbaum, Carlos Alberto Santos de Lucena, Stuart V. Nielsen, Jörn Köhler, Fernando Pacheco Rodrigues, Justin C. Bagley, Shun Ichiro Naomi, Gustavo Hormiga, Geoffrey Odhiambo Ong'ondo, Aurélien Miralles, Alexandre Uarth Christoff, Florian M. Steiner, Matthias Glaubrecht, Victor Van Cakenberghe, Wolfgang Rabitsch, Jack W. Sites, Norma J. Salcedo, Mario Alberto Cozzuol, Ward C. Wheeler, Krister T. Smith, Brian Tilston Smith, Ignacio Jose De La Riva De La Viña, Leo J. Borkin, Ângelo Parise Pinto, Marivene R. Manuel-Santos, Ana Carolina Pavan, M. J. Alves, Dan Cogălniceanu, Luciana F. Santoferrara, James M. Carpenter, Thierry Deuve De Resbecq, Beat Schätti, Jean Pierre Vacher, John G. Day, Ray C. Schmidt, Otto M. P. Oliveira, Lázaro Guevara, Jean-Lou Justine, Karthikeyan Vasudevan, Donat Agosti, Cécile Mourer-Chauviré, Brett C. Ratcliffe, Birgit C. Schlick-Steiner, Sebastian Kvist, Nathan K. Lujan, Robert Alexander Pyron, Rosana M. Rocha, Roberto Poggi, José A. Langone, Larry Lee Grismer, Václav Gvoždík, Natsuhiko Yoshikawa, Thaís P. Miranda, Elizabeth Prendini, Abel Pérez-González, Katharina C. Wollenberg Valero, Jean-Yves Rasplus, Cristiano R. Moreira, Antonietta La Terza, Fabio Siqueira Pitaluga de Godoi, Michael W. Holmes, Thomas E. Lacher, Ronald H. Pine, Matthew P. Heinicke, Steven M. Goodman, John D. Lynch, Elöd Kondorosy, Anderson Feijó, Orfeo Picariello, Wolfgang Denzer, Stefano Valdesalici, Aléssio Datovo, Jean Pierre Hugot, Yuri L. R. Leite, Heinz Grillitsch, Hernán Ortega, Dimitri Forero, Jean Carlos Santos, Marie Claude Durette-Desset, Victor H. Gonzalez, Mrugank Prabhu, Walter E. Schargel, Beate Röll, Caleb D. McMahan, Mitsuru Kuramoto, Edson A. Adriano, Jérôme Constant, Richard Laval, María A. Mendoza-Becerril, Cédric d'Udekem d'Acoz, Alain Didier Missoup, Frank Tillack, Janet K. Braun, Lindsey Swierk, André L. Netto-Ferreira, Xiaofeng Lin, Karl Heinz Jungfer, Fabio Di Dario, Vanessa Kruth Verdade, Pavel Štys, Franco Andreone, Andrés A. Ojanguren-Affilastro, Manuel Ruedi, Didier Van den Spiegel, Rahul Khot, Lars Krogmann, Lance Grande, Robert C. Drewes, Luis M. P. Ceríaco, Jeffrey W. Streicher, Jacob A. Esselstyn, Josiah H. Townsend, Wolfgang Arthofer, Wiesław Bogdanowicz, Marcos A. Raposo, Omar Torres-Carvajal, Dirk Ahrens, Theo Blick, Carlos DoNascimiento, Eric Drouet, Claudia Patricia Ornelas-García, Gervásio Silva Carvalho, Zachary H. Falin, Gaetano Odierna, Michael Maia Mincarone, Sabine Agatha, Christian De Muizon, Célio F. B. Haddad, Pablo Rodrigues Gonçalves, Maarten P.M. Vanhove, Ronald Janssen, Ulrich Burkhardt, Bernard Landry, Paúl M. Velazco, Melanie L. J. Stiassny, Erna Aescht, Sarah Siqueira Oliveira, Koshiro Eto, Thomas van de Kamp, Fabio Cianferoni, Leonardo Ferreira Machado, Luiz Carlos Pinho, Dennis Rödder, Fábio Raposo do Amaral, Shan Gao, Paulo Passos, Nikolai L. Orlov, Emanuel Tschopp, Bert Van Bocxlaer, Roman Hołyński, Isabella Van De Velde, Indraneil Das, Luciano Damián Patitucci, Daniel J. Bennett, Annemarie Ohler, Rachunliu G. Kamei, Patrick Grootaert, Tony Robillard, Jun Gong, Massimo Delfino, Antonio C. Marques, Daizy Bharti, Ira Richling, José L. O. Birindelli, Thiago Borges Fernandes Semedo, Philippe Grandcolas, Eric J. Sargis, Andreas Taeger, Jesús Molinari, Link E. Olson, Christoph Kucharzewski, Luc Janssens de Bisthoven, José P. Pombal, Ryan C. McKellar, Serge Gofas, Mário C. C. de Pinna, Kristofer M. Helgen, Pablo Quintela-Alonso, Marcos Tavares, Wolfgang A. Nässig, Jodi J. L. Rowley, Jairo Arroyave, Fabio Maria Guarino, Djoko T. Iskandar, Martin Fikáček, Joel Cracraft, Robert M. Timm, Lassad Neifar, Marcelo C. Andrade, Moisés Escalona, Max Kieckbusch, George R. Zug, J. V. Remsen, Weibo Song, Paula Beatriz Araujo, Marco Brandalise de Andrade, Luiz Alexandre Campos, Eva V. Bärmann, Thomas Lehmann, Thorsten Stoeck, Jorge Salazar-Bravo, Charles Morphy D. Santos, Joël Minet, Mann Kyoon Shin, Gustavo A. Bravo, Felipe Franco Curcio, Antoine Pariselle, Hidetoshi Ota, David R. Luz, Abdulaziz S. Alqarni, Joseph A. Cook, Cameron D. Siler, Zilda Margarete Seixas de Lucena, Guarino R. Colli, Máriom A. Carvajal, Franziska Bauer, Yves Samyn, Luke Tornabene, Stefan Merker, Favízia Freitas de Oliveira, Murilo N. L. Pastana, Luís Fábio Silveira, Moira Jane FitzPatrick, Stephen D. Busack, Max R. Lambert, Julián Faivovich, Masafumi Matsui, Bernhard A. Huber, Alexandre Aleixo, Mariana P. Marques, Jean-François Trape, Marcello Guimarães Simões, Brian L. Fisher, Brandi S. Coyner, Michael F. Bates, Marcelo Salles Rocha, Silke Schweiger, Jean Raffaëlli, Vladimir Dinets, Paulo C. A. Garcia, Devanshu Gupta, Juan M. Guayasamin, W. Brian Simison, Rudy Jocqué, Aniruddha Datta-Roy, Marcelo R. Britto, Cristiane Bastos-Silveira, Celso O. Azevedo, Roger Bour, Aidin Niamir, Leandro M. Vieira, Mark Epstein, Neal Woodman, Marcelo R. de Carvalho, José Antonio González-Orej, Martin Kruger, Ulisses Caramaschi, Marcus Guidoti, Cibele Biondo, Scott Lyell Gardner, François Dusoulier, Francisco Langeani, John E. Lattke, Helen M. Barber-James, Jan Zima, Guilherme R. R. Brito, Ricardo Moratelli, Stylianos Chatzimanolis, Carlos José Einicker Lamas, John B. Iverson, Maria Hołyńska, Aaron M. Bauer, Luc Brendonck, Klaus-Peter Koepfli, Angelica Crottini, Cristian Hernan Fulvio Perez, Tiago Georg Pikart, Eliécer E. Gutiérrez, Luis García-Prieto, Lawrence R. Heaney, Thomas A. Munroe, Thomas C. Giarla, Laurie J. Vitt, Enrico Borgo, Antonio J. C. Aguiar, Sven O. Kullander, Jean Sébastien Steyer, Marcial Quiroga-Carmona, Matthew J. Miller, Kraig Adler, Werner Conradie, Enrique La Marca, Thomas Schmitt, Dieter Uhl, Mario de Vivo, Rainer Hutterer, Silvio Shigueo Nihei, Perry L. Wood, Amira Chaabane, Tim Tokaryk, Octávio Mateus, Andrés Sebastián Quinteros, Daniel S. Fernandes, Alexandra Cartaxana, Pedro F. Victoriano, Ernest C.J. Seamark, William R. Branch, Mark-Oliver Rödel, Diego Astúa, Marcio R. Pie, Julien Pétillon, Henrard Arnaud, Hossein Rajaei, Sushil K. Dutta, Hussam Zaher, Hernández Díaz Yoalli Quetzalli, Martin Carr, Renan Carrenho, Estefanía Rodríguez, Robert Trusch, Patrick David, Rafaela Lopes Falaschi, Rafael O. de Sá, Miguel Ângelo Marini, Varad B. Giri, Jean-Claude Rage, Guilherme S. T. Garbino, Björn Berning, Thierry Frétey, Vítor de Q. Piacentini, Paulo A. Buckup, David C. Lees, Alfred L. Gardner, Marco Pavia, Pablo Ricardo Mulieri, Lorenzo Prendini, Eliana M. Cancello, Cinthia Chagas, Bruce B. Collette, Leigh R. Richards, Eduardo I. Faúndez, Timothy J. Colston, Thomas Keith Philips, Miguel Trefaut Rodrigues, Renato Gregorin, Karin Meißner, Nathan S. Upham, A. Townsend Peterson, Tiago Kütter Krolow, Felipe Ferraz Figueiredo Moreira, Olivier Montreuil, Leandro M. Sousa, Thomas Weisse, Natalia B. Ananjeva, Donald C. Taphorn, Renata Stopiglia, Marcelo Duarte, Benoit Guénard, Cyril Gallut, Giovanni Boano, David Modrý, Erik Verheyen, Jonas José Mendes Aguiar, Sven Mecke, Alexandre Hassanin, Robert M. Zink, Marcello Mezzasalma, André Silva Roza, Reginaldo Constantino, Alice Hirschmann, Ulisses Pinheiro, Edmundo González-Santillán, Carlos A. Mendoza-Palmero, Tom Artois, Fernando J. M. Rojas-Runjaic, Kailas Chandra, Pablo Teta, Michael Karner, Esteban O. Lavilla, Mauricio Ortega-Andrade, Alexandra Marçal Correia, Deepak Veerappan, Daniela M. Takiya, Bolívar R. Garcete-Barrett, Alexander Kupfer, Sérgio N. Stampar, Daniel Burckhardt, Michael S. Engel, Teresa Kearney, Silvia E. Pavan, Luiz Roberto Malabarba, Mark D. Scherz, Pedro L. V. Peloso, Christiane Denys, Matthias F. Geiger, Alexander Pelzer, Jose G. Tello, Fabio S. Nascimento, Juan D. Daza, Franger J. García, Cinthia A. Brasileiro, Martín J. Ramírez, Marcos Pérsio Dantas Santos, Twan A. A. M. Leenders, Alain Canard, Tomáš Mazuch, Axel Hausmann, Flávio Alicino Bockmann, Prosanta Chakrabarty, Jasmine Purushothaman, Ara Monadjem, David A. Donoso, Kaushik Deuti, Stephen Mahony, Duke S. Rogers, Don E. Wilson, Julian C. Kerbis Peterhans, Jader Marinho-Filho, Alain Dubois, Marcio Luiz de Oliveira, Jan Decher, John M. Midgley, Fernando C. Jerep, Bastian Bentlage, Ivan Löbl, Gregory J. Watkins-Colwell, Uwe Fritz, Annamaria Nistri, Lúcia H. Rapp Py-Daniel, Bruce D. Patterson, Peter J. Taylor, Burton K. Lim, James L. Patton, Colin S. Schoeman, Stéphane Grosjean, Ismael Franz, Cristian Simón Abdala, John S. Sparks, Marcos R. Bornschein, Leonora Pires Costa, Martín O. Pereyra, João Filipe Riva Tonini, Richard Schodde, Blanca Pérez-Luz, Cristiano Feldens Schwertner, Peter Jäger, Marcin Jan Kamiński, Philipp Wagner, Jakob Hallermann, Hendrik Freitag, Olavi Kurina, Laure Desutter-Grandcolas, Romain Garrouste, Pedro De Podestà Uchôa de Aquino, Guillermo D’Elía, Sharlene E. Santana, Roberto E. Reis, Wouter Dekoninck, Sushma Reddy, Alfred L. Rosenberger, James R. McCranie, Wolfgang Böhme, Ricardo C. Benine, Cyrille D'Haese, Paulo H. F. Lucinda, Jacques H. C. Delabie, Carr, Martin, Department of Biology, Northern Arizona University [Flagstaff], Museu Nacional de Historia Natural e da Ciencia, Departamento de Zoologia, Instituto de Ciências Biológicas, Universidade de Brasilia [Brasília] (UnB), National Museum of Natural History, National Museum of Natural History - Leiden, Institut de Systématique, Evolution, Biodiversité (ISYEB ), Muséum national d'Histoire naturelle (MNHN)-Université Pierre et Marie Curie - Paris 6 (UPMC)-École pratique des hautes études (EPHE)-Centre National de la Recherche Scientifique (CNRS), École pratique des hautes études (EPHE), Université Pierre et Marie Curie (Paris 6), Centre National de la Recherche Scientifique (CNRS), Sorbonne Universités, Universidad Nacional de Tucumán (UNT), King Saud University, Cornell University, Universidade Federal de São Paulo, Austrian Museum, Villanova University, Universität Salzburg, Plazi, University of São Paulo, Zoologisches Forschungsmuseum Alexander Koenig, Museu Paraense Emílio Goeldi, Russian Academy of Sciences, Federal University of Para - Universidade Federal do Para [Belem - Brésil], Pontificia Universidade Catolica do Rio Grande do Sul (PUCRS), Museo Regionale di Scienze Naturali, Universidade Federal do Rio Grande do Sul [Porto Alegre] (UFRGS), Royal Museum for Central Africa [Tervuren] (RMCA), Universidad Nacional Autónoma de México (UNAM), Institute of Ecology, Technische Universität Berlin (TUB), Hasselt University, Universidade Federal de Pernambuco [Recife] (UFPE), Universidade Federal do Espírito Santo (UFES), Institut de Recherche pour le Développement (IRD [Nouvelle-Calédonie]), Albany Museum, National Museum, Senckenberg Naturhistorische Sammlungen, Universidade Estadual Paulista Júlio de Mesquita Filho [São José do Rio Preto] (UNESP), Stephen F. Austin State University, Smithsonian Institution, Tyrolean State Museum, Università di Camerino, Universidade Federal do ABC, Museu de Zoologia da Universidade Estadual de Londrina, Senckenberg Research Institute, Museo Civico di Storia Naturale, Muzeum i Instytut Zoologii Polskiej Akademii Nauk, Russian Academy of Sciences [Moscow] (RAS), Port Elizabeth Museum, Sam Noble Museum, Harvard University [Cambridge], North West University, Museu Nacional do Rio de Janeiro, Musée d'Histoire Naturelle de Bâle, Senckenberg Museum [Frankfurt], North Carolina Museum of Natural Sciences, Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES), Museu de Zoologia (MZ), Universidade de São Paulo (USP), American Museum of Natural History, University of Huddersfield, North Dakota State University (NDSU), Faculté des Sciences de Sfax, Université de Sfax - University of Sfax, Departamento de Polícia Técnico Científica (DPTC), Museum of Natural Science, Louisiana State University (LSU), Zoological Survey of India, University of Tennessee System, Ohio State University [Columbus] (OSU), Museu de Ciências Naturais, Universidade Luterana do Brasil (ULBRA), Museo di Storia Naturale, Università degli Studi di Firenze, Ovidius University of Constanta, The University of Mississippi [Oxford], Royal Belgian Institute of Natural Sciences (RBINS), The University of New Mexico [Albuquerque], Instituto Nacional de Pesquisas da Amazônia (INPA), University of Stellenbosh, Universidade Federal de Minas Gerais, Centro de Investigaçao em Biodiversidade e Recursos Genéticos, Museum d'Histoire Naturelle, Centre de Biologie pour la Gestion des Populations (UMR CBGP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Université de Montpellier (UM)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Muséum national d'Histoire naturelle (MNHN)-École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Muséum national d'Histoire naturelle (MNHN)-Université Pierre et Marie Curie - Paris 6 (UPMC)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS), École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL), Université Pierre et Marie Curie - Paris 6 (UPMC), Sorbonne Université (SU), King Saud University [Riyadh] (KSU), Cornell University [New York], Villanova University [USA], Universidade de São Paulo = University of São Paulo (USP), Museu Paraense Emílio Goeldi [Belém, Brésil] (MPEG), the Russian Academy of Sciences [Moscow, Russia] (RAS), Federal University of Para - Universidade Federal do Pará - UFPA [Belém, Brazil] (UFPA), Universidad Nacional Autónoma de México = National Autonomous University of Mexico (UNAM), Technical University of Berlin / Technische Universität Berlin (TU), Hasselt University (UHasselt), Universidade Federal do Espirito Santo (UFES), Universidade Estadual Paulista Júlio de Mesquita Filho = São Paulo State University (UNESP), Università degli Studi di Camerino = University of Camerino (UNICAM), Harvard University, North-West University [Potchefstroom] (NWU), Université de Rennes (UR), American Museum of Natural History (AMNH), Museo di Storia Naturale di Firenze, Università degli Studi di Firenze = University of Florence (UniFI), Stellenbosch University, Museum d'Histoire Naturelle [Genève] (MHN), Ceríaco, Luis M. P., Gutiérrez, Eliécer E., Dubois, Alain, Abdala, Cristian Simón, Alqarni, Abdulaziz S., Adler, Kraig, Adriano, Edson A., Aescht, Erna, Agarwal, Ishan, Agatha, Sabine, Agosti, Donat, Aguiar, Antonio J. C., Aguiar, Jonas José Mende, Ahrens, Dirk, Aleixo, Alexandre, Alves, Maria Judite, Do Amaral, Fabio Raposo, Ananjeva, Natalia, Andrade, Marcelo C., De Andrade, Marco Brandalise, Andreone, Franco, Aquino, Pedro P. U., Araujo, Paula Beatriz, Arnaud, Henrard, Arroyave, Jairo, Arthofer, Wolfgang, Artois, Tom J., Astúa, Diego, Azevedo, Celso, Bagley, Justin C., Baldo, Diego, Barber James, Helen Margaret, Bärmann, Eva V., Bastos Silveira, Cristiane, Bates, Michael F., Bauer, Aaron M., Bauer, Franziska, Benine, Ricardo C., Bennett, Daniel J., Bentlage, Bastian, Berning, Björn, Bharti, Daizy, Biondo, Cibele, Birindelli, José, Blick, Theo, Boano, Giovanni, Bockmann, Flávio A., Bogdanowicz, Wieslaw, Böhme, Wolfgang, Borgo, Enrico, Borkin, Leo, Bornschein, Marcos Ricardo, Bour, Roger, Branch, William R., Brasileiro, Cinthia A., Braun, Janet K., Bravo, Gustavo A., Brendonck, Luc, Brito, Guilherme R. R., Britto, Marcelo R., Buckup, Paulo A., Burckhardt, Daniel, Burkhardt, Ulrich, Busack, Stephen D., Campos, Luiz A., Canard, Alain, Cancello, Eliana M., Caramaschi, Ulisse, Carpenter, James M., Carrenho, Renan, Cartaxana, Alexandra, Carvajal, Mariom A., Carvalho, Gervásio Silva, De Carvalho, Marcelo Rodrigue, Chaabane, Amira, Chagas, Cinthia, Chakrabarty, Prosanta, Chandra, Kaila, Chatzimanolis, Styliano, Chordas, Stephen W., Christoff, Alexandre U., Cianferoni, Fabio, Claramunt, Santiago, Cogãlniceanu, Dan, Collette, Bruce B., Colli, Guarino R., Colston, Timothy J., Conradie, Werner, Constant, Jérôme, Constantino, Reginaldo, Cook, Joseph A., Cordeiro, Danilo, Correia, Alexandra Marçal, Cotterill, Fenton P. D., Coyner, Brandi, Cozzuol, Mario A., Cracraft, Joel, Crottini, Angelica, Cuccodoro, Giulio, Curcio, Felipe Franco, D'Udekem D'Acoz, Cédric, D'Elía, Guillermo, D'Haese, Cyrille, Das, Indraneil, Datovo, Aléssio, Datta Roy, Aniruddha, David, Patrick, Day, John G., Daza, Juan D., De Bisthoven, Luc Janssen, De La Riva De La Viña, Ignacio Jose, De Muizon, Christian, De Pinna, Mario, Piacentini, Vítor De Q., De Sá, Rafael O., De Vivo, Mario, Decher, Jan, Dekoninck, Wouter, Delabie, Jacques H. C., Delfino, Massimo, Delmastro, Giovanni B., Delsinne, Thibaut, Denys, Christiane, Denzer, Wolfgang, Desutter Grandcolas, Laure, Deuti, Kaushik, De Resbecq, Thierry Deuve, Di Dario, Fabio, Dinets, Vladimir, Donascimiento, Carlo, Donoso, David A., Doria, Giuliano, Drewes, Robert C., Drouet, Eric, Duarte, Marcelo, Durette Desset, Marie Claude, Dusoulier, Françoi, Dutta, Sushil Kumar, Engel, Michael S., Epstein, Mark, Escalona, Moisé, Esselstyn, Jacob A., Eto, Koshiro, Faivovich, Julián, Falaschi, Rafaela Lope, Falin, Zachary H., Faundez, Eduardo I., Feijó, Anderson, Feitosa, Rodrigo M., Fernandes, Daniel Silva, Fikáček, Martin, Fisher, Brian L., Fitzpatrick, Moira J., Forero, Dimitri, Franz, Ismael, Freitag, Hendrik, Frétey, Thierry, Fritz, Uwe, Gallut, Cyril, Gao, Shan, Garbino, Guilherme S. T., Garcete Barrett, Bolívar R., García Prieto, Lui, García, Franger J., Garcia, Paulo C. A., Gardner, Alfred L., Gardner, Scott Lyell, Garrouste, Romain, Geiger, Matthias F., Giarla, Thomas C., Giri, Varad, Glaubrecht, Matthia, Glotzhober, Robert C., Godoi, Fabio S. P., Gofas, Serge, Gonçalves, Pablo R., Gong, Jun, Gonzalez, Victor H., González Orej, José Antonio, González Santillán, Edmundo, González Soriano, Enrique, Goodman, Steven M., Grandcolas, Philippe, Grande, Lance, Greenbaum, Eli, Gregorin, Renato, Grillitsch, Heinz, Grismer, Larry Lee, Grootaert, Patrick, Grosjean, Stéphane, Guarino, FABIO MARIA, Guayasamin, Juan M., Guénard, Benoit, Guevara, Lázaro, Guidoti, Marcu, Gupta, Devanshu, Gvoždík, Václav, Haddad, Célio F. B., Hallermann, Jakob, Hassanin, Alexandre, Hausmann, Axel, Heaney, Lawrence R., Heinicke, Matthew P., Helgen, Kristofer M., Henle, Klau, Hirschmann, Alice, Holmes, Michael W., Hołyńska, Maria, Hołyński, Roman, Hormiga, Gustavo, Huber, Bernhard A., Hugot, Jean Pierre, Hutterer, Rainer, Iskandar, Djoko, Iverson, John B., Jäger, Peter, Janssen, Ronald, Jerep, Fernando, Jocqué, Rudy, Jungfer, Karl Heinz, Justine, Jean Lou, Kamei, Rachunliu G., Kamiński, Marcin Jan, Karner, Michael, Kearney, Teresa, Khot, Rahul, Kieckbusch, Max, Köhler, Jörn, Koepfli, Klaus Peter, Kondorosy, Elöd, Krogmann, Lar, Krolow, Tiago Kütter, Krüger, Martin, Kucharzewski, Christoph, Kullander, Sven O., Kumar, Santosh, Kupfer, Alexander, Kuramoto, Mitsuru, Kurina, Olavi, Kury, Adriano, Kvist, Sebastian, La Marca, Enrique, La Terza, Antonietta, Laval, Richard, Lacher, Thomas E., Lamas, Carlos J. E., Lambert, Max R., Landry, Bernard, Langeani, Francisco, Langone, José A., Lattke, John E., Lavilla, Esteban O., Leenders, Twan, Lees, David C., Leite, Yuri L. R., Lehmann, Thoma, Lhano, Marcos Gonçalve, Lim, Burton K., Lin, Xiaofeng, Löbl, Ivan, De Lucena, Carlos A. S., De Lucena, Zilda Margarete S., Lucinda, Paulo, Lujan, Nathan K., Luporini, Pierangelo, Luz, David R., Lynch, John D., Machado, Leonardo Ferreira, Mahony, Stephen, Malabarba, Luiz R., Manuel Santos, Marivene, Marinho Filho, Jader, Marini, Miguel Â., Marques, Antonio Carlo, Marques, Mariana P., Mateus, Octávio, Matsui, Masafumi, Mazuch, Tomáš, Mccranie, Jame, Mckellar, Ryan C., Mcmahan, Caleb D., Mecke, Sven, Meißner, Karin, Mendoza Becerril, María A., Mendoza Palmero, Carlos A., Merker, Stefan, Mezzasalma, Marcello, Midgley, John Mark, Miller, Jeremy, Miller, Matthew J., Mincarone, Michael Maia, Minet, Joël, Miralles, Aurélien, Miranda, Thaís P., Missoup, Alain Didier, Modrý, David, Molinari, Jesú, Monadjem, Ara, Montreuil, Olivier, Moratelli, Ricardo, Moreira, Cristiano Rangel, Moreira, Felipe F. F., Mourer Chauviré, Cécile, Mulieri, Pablo Ricardo, Munroe, Thomas A., Naomi, Shun Ichiro, Nascimento, Fabio, Nässig, Wolfgang A., Neifar, Lassad, Netto Ferreira, Andre L., Niamir, Aidin, Nielsen, Stuart V., Nihei, Silvio S., Nistri, Annamaria, Oceguera Figueroa, Alejandro, Odierna, Gaetano, Ohler, Annemarie, Ojanguren Affilastro, Andres A., De Oliveira, Favízia Freita, De Oliveira, Marcio Luiz, De Oliveira, Otto Müller Patrão, Oliveira, Sarah Siqueira, Olson, Link E., Ong'Ondo, Geoffrey O., Orlov, Nikolai, Ornelas García, Claudia Patricia, Ortega, Hernan, Ortega Andrade, Mauricio, Ota, Hidetoshi, Pariselle, Antoine, Passos, Paulo, Pastana, Murilo N. L., Patterson, Bruce D., Patitucci, Luciano D., Patton, James L., Pavan, Ana C., Pavan, Silvia E., Pavia, Marco, Peloso, Pedro L. V., Pelzer, Alexander, Pereyra, Martín O., Perez Gonzalez, Abel, Pérez Luz, Blanca, Pérez, Cristian Hernan Fulvio, Peterhans, Julian Kerbi, Peterson, A. Townsend, Pétillon, Julien, Philips, Thomas Keith, Picariello, ORFEO LUCIO ANTONIO, Pie, Marcio R., Pikart, Tiago G., Pine, Ronald H., Pinheiro, Ulisse, Pinho, Luiz Carlo, Pinto, Ângelo P., Costa, Leonora Pire, Poggi, Roberto, Pombal, José P., Prabhu, Mrugank, Prendini, Elizabeth, Prendini, Lorenzo, Purushothaman, Jasmine, Pyron, Robert Alexander, Quintela Alonso, Pablo, Quinteros, Andres Sebastian, Quiroga Carmona, Marcial, Rabitsch, Wolfgang, Raffaëlli, Jean, Rage, Jean Claude, Rajaei, Hossein, Ramírez, Martín J., Raposo, Marcos A., Py Daniel, Lucia H. Rapp, Rasplus, Jean Yve, Ratcliffe, Brett C., Reddy, Sushma, Reis, Roberto E., Remsen, James V., Richards, Leigh R., Richling, Ira, Robillard, Tony, Rocha, Marcelo Salle, Rocha, Rosana Moreira, Rödder, Denni, Rödel, Mark Oliver, Rodrigues, Fernando P., Rodriguez, Estefania, Rogers, Duke S., Rojas Runjaic, Fernando J. M., Röll, Beate, Rosenberger, Alfred L., Rowley, Jodi, Roza, André Silva, Ruedi, Manuel, Salazar Bravo, Jorge, Salcedo, Norma J., Samyn, Yve, Santana, Sharlene E., Santoferrara, Luciana, Santos, Bernardo F., Santos, Charles Morphy D., Santos, Jean Carlo, Santos, Marcos Pérsio Danta, Sargis, Eric J., Schargel, Walter E., Schätti, Beat, Scherz, Mark D., Schlick Steiner, Birgit C., Schmidt, Ray C., Schmitt, Thoma, Schodde, Richard, Schoeman, Colin S., Schweiger, Silke, Schwertner, Cristiano F., Seamark, Ernest C. J., Semedo, Thiago B. F., Shin, Mann Kyoon, Siler, Cameron D., Silveira, Luís Fábio, Simison, W. Brian, Simões, Marcello, Sites, Jack W., Smith, Brian Tilston, Smith, Krister T., Song, Weibo, Soulier Perkins, Adeline, Sousa, Leandro M., Sparks, John S., Stampar, Sérgio N., Steiner, Florian M., Steyer, Jean Sébastien, Stiassny, Melanie L. J., Stoeck, Thorsten, Stopiglia, Renata, Streicher, Jeffrey W., Sturaro, Marcelo J., Stys, Pavel, Swierk, Lindsey, Taeger, Andrea, Takiya, Daniela M., Taphorn, Donald C., Tavares, Marco, Tavares, Valeria Da C., Taylor, Peter John, Tello, Jose G., Teta, Pablo, Tillack, Frank, Timm, Robert M., Tokaryk, Tim, Tominaga, Atsushi, Tonini, João Filipe Riva, Tornabene, Luke, Torres Carvajal, Omar, Townsend, Josiah, Trape, Jean Françoi, Rodrigues, Miguel Trefaut, Trusch, Robert, Tschopp, Emanuel, Uhl, Dieter, Upham, Nathan S., Vacher, Jean Pierre, Valdesalici, Stefano, Van Bocxlaer, Bert, Van Cakenberghe, Victor, Van De Kamp, Thoma, Van De Velde, Isabella, Van Den Spiegel, Didier, Vanhove, Maarten P. M., Vasudevan, Karthikeyan, Veerappan, Deepak, Velazco, Paúl M., Verdade, Vanessa K., Verheyen, Erik, Vieira, Leandro M., Victoriano, Pedro F., Vitt, Laurie J., Wagner, Philipp, Watkins Colwell, Gregory J., Weisse, Thoma, Werneck, Fernanda P., Wheeler, Ward C., Wilson, Don E., Valero, Katharina C. Wollenberg, Wood, Perry Lee, Woodman, Neal, Quetzalli, Hernández Díaz Yoalli, Yoshikawa, Natsuhiko, Zaher, Hussam, Ziegler, Thoma, Zima, Jan, Zink, Robert M., Zug, George, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS), Technische Universität Berlin (TU), Università degli Studi di Camerino (UNICAM), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Universidade de Brasília, Institut de Systématique, Evolution, Biodiversité ( ISYEB ), Muséum National d'Histoire Naturelle ( MNHN ) -Université Pierre et Marie Curie - Paris 6 ( UPMC ) -Centre National de la Recherche Scientifique ( CNRS ) -École pratique des hautes études ( EPHE ), Ecole Pratique des Hautes Etudes ( EPHE ), Centre National de la Recherche Scientifique ( CNRS ), Universidad Nacional de Tucumán, Villanova University [Philadelphie], University of Salzburg, Museu Paraense Emilio Goeldi, Universidade Federal do Pará, Pontificia Universidade Catolica do Rio Grande do Sul ( PUCRS ), Universidade Federal do Rio Grande do Sul ( UFRGS ), Royal Museum for Central Africa, Universidad Nacional Autónoma de México ( UNAM ), Technical University of Berlin, Universidade Federal de Pernambuco ( UFPE ), Universidade Federal do Espírito Santo ( UFES ), Institut de Recherche pour le Développement ( IRD [Nouvelle-Calédonie] ), Universidade Estadual Paulista Julio de Mesquita Filho ( UNESP ), Russian Academy of Sciences [Moscow] ( RAS ), Senckenberg Museum, Université de Rennes 1 ( UR1 ), Université de Rennes ( UNIV-RENNES ), Museu de Zoologia ( MZ ), Universidade de São Paulo ( USP ), North Dakota State University ( NDSU ), Departamento de Polícia Técnico Científica ( DPTC ), Louisiana State University ( LSU ), University of Tennessee, Ohio State University [Columbus] ( OSU ), Universidade Luterana do Brasil ( ULBRA ), University of Mississippi, Royal Belgian Institute of Natural Sciences ( RBINS ), University of New Mexico, Instituto Nacional de Pesquisas da Amazônia, Centre de Biologie pour la Gestion des Populations ( CBGP ), Centre de Coopération Internationale en Recherche Agronomique pour le Développement ( CIRAD ) -Centre international d'études supérieures en sciences agronomiques ( Montpellier SupAgro ) -Institut national de la recherche agronomique [Montpellier] ( INRA Montpellier ) -Université de Montpellier ( UM ) -Institut de Recherche pour le Développement ( IRD [France-Sud] ) -Institut national d’études supérieures agronomiques de Montpellier ( Montpellier SupAgro ), Federal Agency for the Safety of the Food Chain, Ceríaco, Luis M., Gutiérrez, Eliécer, Dubois, Alan Alqarni, Abdulaziz, Buckup, Paulo, Simón Abdala, Cristian, Algarni, abdulaziz, A. Adriano, Edson, Erna, Aescht, Villanova Univ, Museu Nacl Hist Nat & Ciencia, Universidade de Brasília (UnB), Smithsonian Inst, Sorbonne Univ, Univ Nacl Tucuman, King Saud Univ, Cornell Univ, Universidade Federal de São Paulo (UNIFESP), Upper Austrian Museum, Univ Salzburg, Zool Forsch Museum A Koenig, Russian Acad Sci, Pontificia Univ Catolica Rio Grande do Sul, Museo Reg Sci Nat, Univ Fed Rio Grande do Sul, Royal Museum Cent Africa, Univ Nacl Autonoma Mexico, Univ Innsbruck, Hasselt Univ, Universidade Federal de Pernambuco (UFPE), Univ Nacl Misiones, Natl Museum, Senckenberg Nat Hist Sammlungen, Universidade Estadual Paulista (Unesp), Stephen F Austin State Univ, Landesmuseum, Univ Camerino, Universidade Federal do ABC (UFABC), Universidade Estadual de Londrina (UEL), Senckenberg Res Inst, Museo Civ Storia Nat, Polskiej Akad Nauk, Harvard Univ, North West Univ, Museu Nacl, Nat Hist Museum, Senckenberg Nat Kundemuseum, North Carolina Museum Nat Sci, Univ Rennes 1, Amer Museum Nat Hist, Univ Huddersfield, North Dakota State Univ, Fac Sci Sfax, DPTC PC, Louisiana State Univ, Zool Survey India, Univ Tennessee, Ohio State Univ, Univ Luterana Brasil, Univ Firenze, Univ Ovidius Constanta, Univ Mississippi, Royal Belgian Inst Nat Sci, Univ New Mexico, Inst Nacl de Pesquisas da Amazonia, Univ Stellenbosch, Universidade Federal de Minas Gerais (UFMG), CIBIO Ctr Invest Biodiversidade & Recursos Genet, Museum Hist Nat, Universidade Federal de Mato Grosso do Sul (UFMS), Univ Austral Chile, Univ Malaysia, Indian Inst Sci, Scottish Assoc Marine Sci, Sam Houston State Univ, Museo Nacl Ciencias Nat, Drexel Univ, Univ Richmond, Ctr Pesquisas Cacau, Univ Torino, Soc Hist Nat Alcide dOrbigny, Wolfden Sci Consulting, Universidade Federal do Rio de Janeiro (UFRJ), Inst Humboldt, Escuela Politec Nacl, Calif Acad Sci, Museum Dept Hist Nat Var, Nat Environm & Wildlife Soc, Univ Kansas, Kyoto Univ, Consejo Nacl Invest Cient & Tecn, Univ Fed Paraiba, Univ Fed Parana, Nat Hist Museum Narodini Museum, Nat Hist Museum Zimbabwe, Ateneo Manila Univ, Pontificia Univ Javeriana, RACINE, Univ Paris 06, Ocean Univ China, Museo Nacl Hist Nat Paraguay, Univ Carabobo, Natl Ctr Biol Sci, Univ Nebraska, CENAK Ctr Nat Kunde, Ohio Hist Connect, Univ Fed Amazonas, Univ Malaga, Chinese Acad Sci, Benemerita Univ Autonoma Puebla, Natl Polytech Inst, Field Museum Nat Hist, Univ Texas El Paso, Universidade Federal de Lavras (UFLA), La Sierra Univ, Univ San Francisco Quito, Univ Hong Kong, CUNY, CAS, Zool Staatssammlung Munchen, Univ Michigan, Helmholtz Ctr Environm Res, Santa Rosa Jr Coll, George Washington Univ, Inst Teknol Bandung, Earlham Coll, Senckenberg Forschungsinst & Nat Museum, Univ Koblenz Landau, Ditsong Natl Museum Nat Hist, Bombay Nat Hist Soc, Philipps Univ Marburg, Hess Landesmuseum, Smithsonian Conservat Biol Inst, Univ Pannonia, Staatliches Museum Nat Kunde, UFT, Museum Nat Kunde, Nat Hist Riksmuseet, Hikarigaoka, Inst Agr & Environm Sci, Univ Los Andes, Bat Jungle, Texas A&M Univ, Yale Univ, Museo Nacl Hist Nat, Roger Tory Peterson Inst Nat Hist, Univ Fed Reconcavo Bahia, South China Normal Univ, Museu Ciencias Tecnol PUCRS, Univ Fed Tocantins, Univ Toronto, Univ Nacl Colombia, Natl Museum Philippines, NOVA Univ Lisbon, Royal Saskatchewan Museum, Deutsch Zentrum Marine Biodiversitatsforsch, Ctr Invest Biol Noroeste, Naturalis Biodivers Ctr, Univ Douala, Vet & Farmaceut Univ Brno, Univ Swaziland, Fundacao Oswaldo Cruz, Univ Claude Bernard, Museum Vertebrate Zool, Nat Hist Museum & Inst, Senckenberg Biodiversitat & Klima Forschunsgzentr, Marquette Univ, Universidade Federal da Bahia (UFBA), Fed Univ ABC, Universidade Federal de Goiás (UFG), Univ Alaska Museum, Egerton Univ, Museo Hist Nat, IKIAM Univ Reg Amazon, Univ Hyogo, Inst Rech Dev, Niedersachs Landesbetrieb Wasserwirtschaft Kusten, Univ Complutense Madrid, Roosevelt Univ, Western Kentucky Univ, Univ Naples Federico II, Univ Fed Acre, Universidade Federal de Santa Catarina (UFSC), Inst Bio & Geociencias Noroeste Argentino, Inst Venezolano Invest Cient, Umweltbundesamt, Penclen, CNRS MNHN UPMC, Staatl Museum Nat Kunde, Ctr Biol Gest Populat INRA, Loyola Univ Chicago, Pontificia Univ Catolica Rio do Sul, Durban Museum Nat Sci, Univ Estado Amazonas, Brigham Young Univ, Museo Hist Nat La Salle, Univ Vet Med Hannover, Australian Museum, Texas Tech Univ, Francis Marion Univ, Univ Washington, Univ Connecticut, Universidade Federal de Uberlândia (UFU), Fed Univ Para, Yale Peabody Museum, Univ Texas Arlington, Senckenberg Deutsch Entomol Inst, CSIRO, Univ Venda, Univ Ulsan, Senckenberg Forsch Inst & Nat Museum, Univ Fed Para, UPMC, Tech Univ Kaiserslautern, Charles Univ Prague, Univ Nacl Expt los Llanos Occident Ezequiel Zamor, Long Isl Univ, Univ Ryukyus, Pontificia Univ Catolica Ecuador, Indiana Univ Penn, IRD, State Museum Nat Hist Karlsruhe, Univ Toulouse III Paul Sabatier, Univ Ghent, Univ Antwerp, Karlsruhe Inst Technol, Ctr Cellular & Mol Biol, Yale Peabody Museum Nat Hist, Bethune Cookman Univ, Natl Museum Nat & Sci, and Zool Garten Koln
Subjects: 0106 biological sciences, [SDV]Life Sciences [q-bio], Rebuttal, 010607 zoology, Biology, [SDV.BID.SPT]Life Sciences [q-bio]/Biodiversity/Systematics, Phylogenetics and taxonomy, Q1, 010603 evolutionary biology, 01 natural sciences, Biological Science Disciplines, FOTOGRAFIA, Photography, Animals, Animal species, Biological sciences, QH426, Ecology, Evolution, Behavior and Systematics, ComputingMilieux_MISCELLANEOUS, Taxonomy, QL, [ SDV ] Life Sciences [q-bio], Ecology, [SDV.BA]Life Sciences [q-bio]/Animal biology, Biodiversity, Classification, Ecology, Evolution, Behavior and Systematic, Taxonomy (biology), Animal Science and Zoology, Classics
Abstract: Made available in DSpace on 2021-06-25T12:17:32Z (GMT). No. of bitstreams: 0 Previous issue date: 2016-11-23 Villanova Univ, Dept Biol, Villanova, PA 19085 USA Museu Nacl Hist Nat & Ciencia, Lisbon, Portugal Univ Brasilia, Dept Zool, Inst Ciencias Biol, BR-70910900 Brasilia, DF, Brazil Smithsonian Inst, Natl Museum Nat Hist, Washington, DC 20560 USA Sorbonne Univ, Museum Natl Hist Nat, ISYEB, Paris, France Univ Nacl Tucuman, San Miguel De Tucuman, Argentina King Saud Univ, Riyadh, Saudi Arabia Cornell Univ, Ithaca, NY USA Univ Fed Sao Paulo, Diadema, Brazil Upper Austrian Museum, Ctr Biol, Linz, Austria Villanova Univ, Villanova, PA 19085 USA Univ Salzburg, Salzburg, Austria Plazi, Bern, Switzerland Univ Brasilia, Brasilia, DF, Brazil Univ Sao Paulo, Ribeirao Preto, Brazil Zool Forsch Museum A Koenig, Bonn, Germany Museu Paraense Emilio Goeldi, Belem, Para, Brazil Russian Acad Sci, St Petersburg, Russia Pontificia Univ Catolica Rio Grande do Sul, Porto Alegre, RS, Brazil Museo Reg Sci Nat, Turin, Italy Univ Fed Rio Grande do Sul, Porto Alegre, RS, Brazil Royal Museum Cent Africa, Tervuren, Belgium Univ Nacl Autonoma Mexico, Mexico City, DF, Mexico Univ Innsbruck, Inst Ecol, Innsbruck, Austria Hasselt Univ, Hasselt, Belgium Univ Fed Pernambuco, Recife, PE, Brazil Univ Fed Espirito Santo, Vitoria, ES, Brazil Univ Nacl Misiones, Felix De Azara, Argentina Albany Museum, Grahamstown, South Africa Natl Museum, Bloemfontein, South Africa Senckenberg Nat Hist Sammlungen, Dresden, Germany Univ Estadual Paulista, Botucatu, SP, Brazil Stephen F Austin State Univ, Nacogdoches, TX 75962 USA Landesmuseum, Leonding, Austria Univ Camerino, Camerino, Italy Univ Fed ABC, Sao Bernardo, Brazil Univ Estadual Londrina, Museu Zool, Londrina, Parana, Brazil Senckenberg Res Inst, Frankfurt, Germany Museo Civ Storia Nat, Carmagnola, Italy Polskiej Akad Nauk, Muzeum & Inst Zool, Warsaw, Poland Museo Civ Storia Nat, Genoa, Italy Russian Acad Sci, Inst Zool, St Petersburg, Russia Univ Estadual Paulista, Sao Vicente, Brazil Sorbonne Univ, ISYEB, Museum Natl Hist Nat, Paris, France Port Elizabeth Museum, Port Elizabeth, South Africa Sam Noble Museum, Norman, OK USA Harvard Univ, Museum Comparat Zool, Cambridge, MA 02138 USA North West Univ, Potchefstroom, South Africa Museu Nacl, Rio De Janeiro, Brazil Nat Hist Museum, Basel, Switzerland Senckenberg Nat Kundemuseum, Gorlitz, Germany North Carolina Museum Nat Sci, Raleigh, NC USA Univ Rennes 1, Rennes, France Univ Sao Paulo, Museu Zool, Sao Paulo, SP, Brazil Amer Museum Nat Hist, New York, NY 10024 USA Univ Huddersfield, Huddersfield, W Yorkshire, England North Dakota State Univ, Fargo, ND USA Univ Sao Paulo, Sao Paulo, SP, Brazil Fac Sci Sfax, Sfax, Tunisia DPTC PC, Manaus, Amazonas, Brazil Louisiana State Univ, Museum Nat Sci, Baton Rouge, LA 70803 USA Zool Survey India, Kolkata, India Univ Tennessee, Chattanooga, TN USA Ohio State Univ, Columbus, OH 43210 USA Univ Luterana Brasil, Museu Ciencias Nat, Canoas, Brazil Univ Firenze, Florence, Italy Univ Ovidius Constanta, Constanta, Romania Univ Mississippi, Oxford, MS USA Royal Belgian Inst Nat Sci, Brussels, Belgium Univ New Mexico, Albuquerque, NM 87131 USA Inst Nacl de Pesquisas da Amazonia, Manaus, Amazonas, Brazil Univ Stellenbosch, Matieland, South Africa Univ Fed Minas Gerais, Belo Horizonte, MG, Brazil CIBIO Ctr Invest Biodiversidade & Recursos Genet, Vairao, Portugal Museum Hist Nat, Geneva, Switzerland Univ Fed Mato Grosso, Cuiaba, Brazil Univ Austral Chile, Valdivia, Chile Univ Malaysia, Sarawak, Malaysia Indian Inst Sci, Bangalore, Karnataka, India Scottish Assoc Marine Sci, Oban, Argyll, Scotland Sam Houston State Univ, Huntsville, TX 77340 USA Museo Nacl Ciencias Nat, Madrid, Spain Sorbonne Univ, CR2P, Museum Natl Hist Nat, Paris, France Drexel Univ, Acad Nat Sci, Philadelphia, PA 19104 USA Univ Richmond, Richmond, VA 23173 USA Ctr Pesquisas Cacau, Itabuna, Brazil Univ Torino, Turin, Italy Soc Hist Nat Alcide dOrbigny, Aubiere, France Wolfden Sci Consulting, Murcia, Spain Univ Fed Rio de Janeiro, Macae, Brazil Univ Tennessee, Knoxville, TN USA Inst Humboldt, Villa De Leyva, Colombia Escuela Politec Nacl, Quito, Ecuador Calif Acad Sci, San Francisco, CA 94118 USA Museum Dept Hist Nat Var, Toulon, France Nat Environm & Wildlife Soc, Angul, India Univ Kansas, Lawrence, KS 66045 USA Kyoto Univ, Kyoto, Japan Consejo Nacl Invest Cient & Tecn, Museo Argentino Ciencias Nat Bernardino Rivadavia, Buenos Aires, DF, Argentina Univ Fed Paraiba, Joao Pessoa, Paraiba, Brazil Univ Fed Parana, Curitiba, Parana, Brazil Univ Fed Rio de Janeiro, Rio De Janeiro, Brazil Nat Hist Museum Narodini Museum, Prague, Czech Republic Nat Hist Museum Zimbabwe, Bulawayo, Zimbabwe Ateneo Manila Univ, Quezon City, Philippines Pontificia Univ Javeriana, Bogota, Colombia RACINE, St Maugan, France Univ Paris 06, Sorbonne Univ Paris, ISYEB, Paris, France Ocean Univ China, Qingdao, Peoples R China Museo Nacl Hist Nat Paraguay, San Lorenzo, Paraguay Univ Carabobo, Valencia, Venezuela Natl Ctr Biol Sci, 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Jr Coll, Santa Rosa, CA USA George Washington Univ, Washington, DC 20037 USA Inst Teknol Bandung, Bandung, Indonesia Earlham Coll, Richmond, IN USA Senckenberg Forschungsinst & Nat Museum, Frankfurt, Germany Univ Estadual Londrina, Londrina, Parana, Brazil Univ Koblenz Landau, Koblenz, Germany Nat Hist Museum, London, England Ditsong Natl Museum Nat Hist, Pretoria, South Africa Bombay Nat Hist Soc, Bombay, Maharashtra, India Philipps Univ Marburg, Marburg, Germany Hess Landesmuseum, Darmstadt, Germany Smithsonian Conservat Biol Inst, Washington, DC USA Univ Pannonia, Keszthely, Hungary Staatliches Museum Nat Kunde, Stuttgart, Germany UFT, Tocantins, Portugal Museum Nat Kunde, Berlin, Germany Nat Hist Riksmuseet, Stockholm, Sweden Hikarigaoka, Munakata, Japan Inst Agr & Environm Sci, Tartu, Estonia Univ Los Andes, Merida, Venezuela Bat Jungle, Monteverde, Costa Rica Texas A&M Univ, College Stn, TX USA Yale Univ, New Haven, CT USA Univ Estadual Paulista, Sao Jose Do Rio Preto, Brazil Museo Nacl Hist Nat, Montevideo, Uruguay Consejo Nacl Invest Cient & Tecn, Fdn Miguel Lillo, San Miguel De Tucuman, Argentina Roger Tory Peterson Inst Nat Hist, Jamestown, VA USA Univ Fed Reconcavo Bahia, Cruz Das Almas, Brazil South China Normal Univ, Guangzhou 510631, Guangdong, Peoples R China Museu Ciencias Tecnol PUCRS, Porto Alegre, RS, Brazil Univ Fed Tocantins, Porto Nacl, Brazil Univ Toronto, Scarborough, ON, Canada Univ Nacl Colombia, Inst Ciencias Nat, Bogota, Colombia Natl Museum Philippines, Manila, Philippines NOVA Univ Lisbon, Caparica, Portugal Royal Saskatchewan Museum, Regina, SK, Canada Deutsch Zentrum Marine Biodiversitatsforsch, Hamburg, Germany Ctr Invest Biol Noroeste, La Paz, Mexico Naturalis Biodivers Ctr, Leiden, Netherlands Univ Douala, Douala, Cameroon Vet & Farmaceut Univ Brno, Brno, Czech Republic Univ Swaziland, Kwaluseni, Eswatini Fundacao Oswaldo Cruz, Rio De Janeiro, Brazil Univ Claude Bernard, Lyon, France Museum Vertebrate Zool, Berkeley, CA USA 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& Geociencias Noroeste Argentino, Salta, Argentina Inst Venezolano Invest Cient, Caracas, Venezuela Umweltbundesamt, Vienna, Austria Penclen, Plumelec, France CNRS MNHN UPMC, Ctr Rech Paleobiodivers & Paleoenvironm, Paris, France Staatl Museum Nat Kunde, Stuttgart, Germany Consejo Nacl Invest Cient & Tecn, Museo Argentino Ciencias Nat Bernardino Rivada, Buenos Aires, DF, Argentina Ctr Biol Gest Populat INRA, Montferrier Sur Lez, France Loyola Univ Chicago, Chicago, IL USA Pontificia Univ Catolica Rio do Sul, Porto Alegre, RS, Brazil Durban Museum Nat Sci, Durban, South Africa Univ Estado Amazonas, Manaus, Amazonas, Brazil Brigham Young Univ, Provo, UT 84602 USA Museo Hist Nat La Salle, Caracas, Venezuela Univ Vet Med Hannover, Hannover, Germany Australian Museum, Sydney, NSW, Australia Texas Tech Univ, Lubbock, TX 79409 USA Francis Marion Univ, Florence, SC USA Univ Washington, Seattle, WA 98195 USA Univ Connecticut, Groton, CT USA Fed Univ ABC, Santo Andre, SP, Brazil Univ Fed Uberlandia, Uberlandia, MG, Brazil Fed Univ Para, Belem, Para, Brazil Yale Peabody Museum, New Haven, CT USA Univ Texas Arlington, Arlington, TX 76019 USA Senckenberg Deutsch Entomol Inst, Muncheberg, Germany CSIRO, Natl Res Collect, Canberra, ACT, Australia Univ Venda, Thohoyandou, South Africa Univ Ulsan, Ulsan, South Korea Univ Estadual Sao Paulo, Botucatu, SP, Brazil Senckenberg Forsch Inst & Nat Museum, Frankfurt, Germany Ocean Univ China, Inst Marine Biodivers & Evolut, Qingdao, Shandong, Peoples R China Univ Fed Para, Altamira, Brazil Univ Estadual Paulista, Assis, Brazil UPMC, Ctr Rech Paleobiodiversite & Paleoenvironm, CNRS, MNHN, Paris, France Tech Univ Kaiserslautern, Kaiserslautern, Germany Charles Univ Prague, Dept Zool, Prague, Czech Republic Univ Nacl Expt los Llanos Occident Ezequiel Zamor, Guanare, Venezuela Long Isl Univ, Brooklyn, NY USA Univ Ryukyus, Okinawa, Japan Pontificia Univ Catolica Ecuador, Museo Zool, Escuela Ciencias Biol, Quito, Ecuador Indiana Univ Penn, Indiana, PA USA IRD, Dakar, Senegal State Museum Nat Hist Karlsruhe, Karlsruhe, Germany Univ Toulouse III Paul Sabatier, Toulouse, France Univ Ghent, Ghent, Belgium Univ Antwerp, Antwerp, Belgium Karlsruhe Inst Technol, Karlsruhe, Germany Ctr Cellular & Mol Biol, Hyderabad, India Univ Fed ABC, Santo Andre, Brazil Yale Peabody Museum Nat Hist, New Haven, CT USA Univ Innsbruck, Mondsee, Austria Bethune Cookman Univ, Daytona Beach, FL USA Natl Museum Nat & Sci, Tokyo, Japan Zool Garten Koln, Cologne, Germany Univ Estadual Paulista, Botucatu, SP, Brazil Univ Estadual Paulista, Sao Vicente, Brazil Univ Estadual Paulista, Rio Claro, Brazil Univ Estadual Paulista, Sao Jose Do Rio Preto, Brazil Univ Estadual Paulista, Assis, Brazil
Published: 2016

28. Collection, isolation and culturing strategies for Oxyrrhis marina

Author: Emma C. Wootton, Laura E. Martin, Phillip C. Watts, Emily C. Roberts, David J. S. Montagnes, Chris D. Lowe, School ofBiological Sciences, University of Liverpool, School of Biological Sciences, School of the Environment and Society, Swansea University, Biol Sci, Univ. Liverpool, and School of Biological Sciences [Liverpool]
Subjects: 0106 biological sciences, 0303 health sciences, Ecology, 010604 marine biology & hydrobiology, Life Sciences, Genomics, Context (language use), Aquatic Science, Biology, biology.organism_classification, Isolation (microbiology), 01 natural sciences, Oxyrrhis marina, 03 medical and health sciences, 14. Life underwater, Flagellate, Axenic, Ecology, Evolution, Behavior and Systematics, Organism, 030304 developmental biology
Abstract: International audience; The heterotrophic marine flagellate Oxyrrhis marina, is a popular and tractable model organism, being common in the intertidal environment and relatively straight forward to maintain in the laboratory. In this report, based on our experience of collecting and culturing ~400 isolates, we provide a quantification of how 'easy' O. marina is to locate and isolate from the environment and subsequently maintain in culture. In addition, we provide a brief review of the literature pertaining to O. marina culturing, stressing in particular the broad physiological tolerance and wide diet range of this organism. Finally, in light of the increasing interest in the genetics and genomics of O. marina, and heterotrophic protists more generally, we highlight existing strategies for culturing heterotrophs for '-omic' applications, and summarise our specific culturing approaches, for genomic and proteomic studies of O. marina. In this context, we outline a simplified version of Droop's medium for axenic culturing and offer details on the use of heat-killed Escherichia coli as a simple and robust food source for culturing O. marina in the absence of other eukaryotes and live prokaryotes.
Published: 2010

29. Additive and interactive effects of functionally dissimilar soil organisms on a grassland plant community

Author: Stéphane Saj, Frédéric Henry, Susanne Wurst, Alia Rodriguez, Christina Witt, Natalia Ladygina, Merijn R. Kant, Ilja Sonnemann, Stefan Reidinger, Robert Koller, Dept Ecol, University of São Paulo (USP), University of Copenhagen = Københavns Universitet (KU), Max Planck Institute for Chemical Ecology, Max-Planck-Gesellschaft, Laboratoire Agronomie et Environnement (LAE), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), Sch Biol Sci, Queen Mary University of London (QMUL), Consejo Superior de Investigaciones Científicas [Madrid] (CSIC), University of Helsinki, University of Reading (UOR), Royal Netherlands Academy of Arts and Sciences (KNAW), EU Marie Curie BIORHIZ Research Network, Population Biology (IBED, FNWI), and Multitrophic Interactions (MTI)
Subjects: 0106 biological sciences, Nematodes, [SDV]Life Sciences [q-bio], Teneur en matière organique, Plante herbacée, F62 - Physiologie végétale - Croissance et développement, 01 natural sciences, Mycorhizé à vésicule et arbuscule, Prairie, Decomposer, COLONIZATION, Interactions biologiques, Nutrient, AMF, Biomasse, Glomus, Agrostis capillaris, 2. Zero hunger, Biomass (ecology), ARBUSCULAR-MYCORRHIZAL FUNGI, biology, MICROBIAL COMMUNITY, food and beverages, 04 agricultural and veterinary sciences, Coleoptera, C/N content, Productivity (ecology), [SDE]Environmental Sciences, Shoot, Functional groups, PLFA, Collembolans, Micro-organisme du sol, FOOD-WEB, Nématode à vie libre, EARLY SUCCESSION, Soil Science, Teneur en azote, complex mixtures, 010603 evolutionary biology, Microbiology, ROOT HERBIVORY, BELOW-GROUND BIOTA, Botany, Enchytraeidae, Plant biomass, Wireworms, fungi, Activité biologique dans le sol, P34 - Biologie du sol, Plant community, 15. Life on land, biology.organism_classification, SPECIES DIVERSITY, Agronomy, 040103 agronomy & agriculture, INSECT HERBIVORY, Collembola, 0401 agriculture, forestry, and fisheries
Abstract: International audience; The productivity and diversity of plant communities are affected by soil organisms such as arbuscular mycorrhizal fungi (AMF), root herbivores and decomposers. However, it is unknown how interactions between such functionally dissimilar soil organisms affect plant communities and whether the combined effects are additive or interactive. In a greenhouse experiment we investigated the individual and combined effects of AMF (five Glomus species), root herbivores (wireworms and nematodes) and decomposers (collembolans and enchytraeids) on the productivity and nutrient content of a model grassland plant community as well as on soil microbial biomass and community structure. The effects of the soil organisms on productivity (total plant biomass), total root biomass, grass and forb biomass, and nutrient uptake of the plant community were additive. AMF decreased, decomposers increased and root herbivores had no effect on productivity, but in combination the additive effects canceled each other out. AMF reduced total root biomass by 18%, but decomposers increased it by 25%, leading to no net effect on total root biomass in the combined treatments. Total shoot biomass was reduced by 14% by root herbivores and affected by an interaction between AMF and decomposers where decomposers had a positive impact on shoot growth only in presence of AMF. AMF increased the shoot biomass of forbs, but reduced the shoot biomass of grasses, while root herbivores only reduced the shoot biomass of grasses. Interactive effects of the soil organisms were detected on the shoot biomasses of Lotus corniculatus, Plantago lanceolata, and Agrostis capillaris. The C/N ratio of the plant community was affected by AMF. In soil, AMF promoted abundances of bacterial, actinomycete, saprophytic and AMF fatty acid markers. Decomposers alone decreased bacterial and actinomycete fatty acids abundances but when decomposers were interacting with herbivores those abundances were increased. Our results suggests that at higher resolutions, i.e. on the levels of individual plant species and the microbial community, interactive effects are common but do not affect the overall productivity and nutrient uptake of a grassland plant community, which is mainly affected by additive effects of functionally dissimilar soil organisms. (c) 2010 Elsevier Ltd. All rights reserved.
Published: 2010

30. An introduction to the special issue: Oxyrrhis marina, a model organism?

Author: Phill Watts, Emily C. Roberts, Zhou Yang, David J. S. Montagnes, Patrick J. Keeling, Keith Davidson, Michael Steinke, Mark N. Breckels, Claudio H. Slamovits, Daniel E. Boakes, Chris D. Lowe, School of Biological Sciences, University of Liverpool, Biol Sci, Liverpool John Moore University (ljmu), School of the Environment and Society, Swansea University, Department of Biological Sciences, University of Essex, Plymouth Marine Laboratory, Biological Sciences, Biology, SAMS, Botany, Univ. BC, Biochem and Mol Bio, Dalhousi Univ., Biological sci, Nanjing Normal University (NNU), and Univ. Liverpool
Subjects: 0106 biological sciences, 0303 health sciences, Ecology, biology, 010604 marine biology & hydrobiology, Ecology (disciplines), Life Sciences, Environmental ethics, Aquatic Science, biology.organism_classification, 01 natural sciences, Oxyrrhis marina, 03 medical and health sciences, Taxon, Ecology, Evolution, Behavior and Systematics, 030304 developmental biology
Abstract: Many "model" protists are maintained in culture and used, experimentally, to answer questions associated with planktonic processes. Given the current interest and rapidly increasing amount of literature on the heterotrophic dinoflagellate Oxyrrhis marina, we present in this special issue a series of focused, interlinked research articles. Being written by experts in their respective fields, the authors have included unpublished data and in all cases have offered a synthesis of data and ideas. Furthermore, we have encouraged cross-paper discourse, emphasizing the interdisciplinary nature of our work and the utility of O. marina to this end; we also offer guidance, both practical and intellectual, on how future research related to O. marina might progress. In this introduction, however, we raise the wider issue of which criteria are required to consider a taxon as a "model species". We then assess the extent to which O. marina can fill this role. In general, we recognize O. marina as a model in three distinct disciplines: ecology, evolution/genomics and biogeography. Of possibly greater importance, we recognize that if O. marina continues to be studied at an escalating rate, there will be a concomitant increase in realized and potential synergies across these fields. © The Author 2010. Published by Oxford University Press. All rights reserved.
Published: 2010

31. A conserved role for CUP-SHAPED COTYLEDON genes during ovule development

Author: Katia Belcram, Patrick Laufs, Nicolas Arnaud, Aurélie C. M. Vialette-Guiraud, Alice Hasson, Millán Cortizo, Seiji Takeda, Beatriz Gonçalves, Halima Morin, Krisztina Nikovics, Mitsuhiro Aida, Institut Jean-Pierre Bourgin (IJPB), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Institut des Sciences des Plantes de Paris-Saclay (IPS2 (UMR_9213 / UMR_1403)), Institut National de la Recherche Agronomique (INRA)-Université d'Évry-Val-d'Essonne (UEVE)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Diderot - Paris 7 (UPD7)-Université Paris-Saclay-Université Paris-Sud - Paris 11 (UP11), Reproduction et développement des plantes (RDP), École normale supérieure - Lyon (ENS Lyon)-Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS), Grad Sch Life & Environm Sci, Cell & Genome Biol, Kyoto Prefectural University, Grad Sch Biol Sci, Nara Institute of Science and Technology, Institut National de la Recherche Agronomique (INRA)-Université Paris-Sud - Paris 11 (UP11)-Université Paris Diderot - Paris 7 (UPD7)-Université d'Évry-Val-d'Essonne (UEVE)-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de la Recherche Agronomique (INRA)-École normale supérieure - Lyon (ENS Lyon), Kyoto Prefectural University (KPU), École normale supérieure de Lyon (ENS de Lyon)-Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), and Institut National de la Recherche Agronomique (INRA)-Université Paris-Sud - Paris 11 (UP11)-Université Paris Diderot - Paris 7 (UPD7)-Université d'Évry-Val-d'Essonne (UEVE)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS)
Subjects: 0106 biological sciences, Arabidopsis thaliana, [SDV]Life Sciences [q-bio], Arabidopsis, Plant Science, 01 natural sciences, Solanum lycopersicum, Gene Expression Regulation, Plant, Ovule, boundaries, Plant Proteins, ORGAN BOUNDARY FORMATION, 0303 health sciences, biology, food and beverages, CUP-SHAPED COTYLEDON genes, Plants, Genetically Modified, Cell biology, LEAF DEVELOPMENT, LATERAL-SUPPRESSOR, SHOOT APICAL MERISTEM, Cotyledon, ovule, Gynoecium, food.ingredient, Magnoliopsida, 03 medical and health sciences, food, Botany, evolution, Genetics, Primordium, Transcription factor, development, FLOWER DEVELOPMENT, Pisum sativum, 030304 developmental biology, Arabidopsis Proteins, fungi, Cardamine hirsuta, Cell Biology, Meristem, biology.organism_classification, MICRORNA REGULATION, MARGIN DEVELOPMENT, ARABIDOPSIS-THALIANA, Cardamine, AUXIN TRANSPORT, Transcription Factors, 010606 plant biology & botany, PATTERN-FORMATION
Abstract: The evolution of plant reproductive strategies has led to a remarkable diversity of structures, especially within the flower, a structure characteristic of the angiosperms. In flowering plants, sexual reproduction depends notably on the development of the gynoecium that produces and protects the ovules. In Arabidopsis thaliana, ovule initiation is promoted by the concerted action of auxin with CUC1 (CUP-SHAPED COTYLEDON1) and CUC2, two genes that encode transcription factors of the NAC family (NAM/ATAF1,2/CUC). Here we highlight an additional role for CUC2 and CUC3 in Arabidopsis thaliana ovule separation. While CUC1 and CUC2 are broadly expressed in the medial tissue of the gynoecium, CUC2 and CUC3 are expressed in the placental tissue between developing ovules. Consistent with the partial overlap between CUC1, CUC2 and CUC3 expression patterns, we show that CUC proteins can physically interact, both in yeast cells and in planta. We found that the cuc2;cuc3 double mutant specifically harbours defects in ovule separation, producing fused seeds that share the seed coat, and suggesting that CUC2 and CUC3 promote ovule separation in a partially redundant manner. Functional analyses show that CUC transcription factors are also involved in ovule development in Cardamine hirsuta. Additionally we show a conserved expression pattern of CUC orthologues between ovule primordia in other phylogenetically distant species with different gynoecium architectures. Taken together these results suggest an ancient role for CUC transcription factors in ovule separation, and shed light on the conservation of mechanisms involved in the development of innovative structures. Significance Statement CUP-SHAPED COTYLEDON transcription factors are key players in boundary definition, an important step in several developmental processes such as primordia initiation, axillary meristem formation, leaf dissection and ovule primordia outgrowth. We identify an additional role for CUC2 and CUC3 transcription factors in ovule separation in Arabidopsis, and provide data that suggests this role is conserved across different species, thus shedding light on the conservation of regulatory mechanisms in different developmental and evolutionary contexts.
Published: 2015

32. Long-term decline of the Amazon carbon sink

Author: Fredy Ramírez, Carlos A. Quesada, L da Costa, Pablo Núñez, J Teran-Aguilar, René G. A. Boot, Jorcely Barroso, Hirma Ramírez-Angulo, Niro Higuchi, Javier E. Silva-Espejo, Zorayda Restrepo, Euler Melo Nogueira, Carolina V. Castilho, Timothy R. Baker, Marielos Peña-Claros, David W. Galbraith, Christopher Baraloto, Roderick Zagt, Emilio Vilanova, Timothy J. Killeen, Lourens Poorter, Rafael de Paiva Salomão, Susan G. Laurance, Marcos Silveira, E. A. de Oliveira, John Terborgh, Simon L. Lewis, Georgia Pickavance, A. Di Fiore, Damien Bonal, Bruno Hérault, Julie Peacock, Kuo-Jung Chao, Casimiro Mendoza, Vincent A. Vos, Alexander Parada, Juliana Stropp, P. van der Hout, Roel J. W. Brienen, V. Chama, James A. Comiskey, Ben Hur Marimon-Junior, Marisol Toledo, Raquel Thomas-Caesar, Ted R. Feldpausch, F. Cornejo Valverde, Olaf Bánki, Yadvinder Malhi, N. C. Pallqui Camacho, R. Vásquez Martínez, Emanuel Gloor, Helen C. Keeling, E S Grahame, Simone Aparecida Vieira, Adriana Prieto, Terry L. Erwin, Agustín Rudas, Joey Talbot, I. C. Guimarães Vieira, Natalino Silva, Ana Andrade, Ricardo Keichi Umetsu, Anand Roopsind, Oliver L. Phillips, W E Magnussen, William F. Laurance, Mônica Forsthofer, Sophie Fauset, E. Alvarez Dávila, Luzmila Arroyo, H. ter Steege, Nikée Groot, Nigel C. A. Pitman, Jon Lloyd, Jérôme Chave, Michael P. Schwarz, Mireia Torello-Raventos, Juan Carlos Licona, G. M. F. van der Heijden, Miguel Alexiades, Alejandro Araujo-Murakami, Luiz E. O. C. Aragão, David A. Neill, Eric Arets, Patricia Alvarez-Loayza, Abel Monteagudo-Mendoza, Gabriela Lopez-Gonzalez, G. Pardo-Molina, José Luís Camargo, Beatriz Schwantes Marimon, E.N. Honorio Coronado, University of Leeds, Coll Life & Environm Sci, University of Exeter, Sci Technol & Med, Dept Life Sci, Queen Mary University of London (QMUL), Sch Marine & Trop Biol, James Cook University (JCU), Prolongac Bolognesi Mze, Missouri Botanical Garden (USA), Sch Geog & Environm, Environm Change Inst, University of Oxford [Oxford], University College of London [London] (UCL), Sch Anthropol & Conservat, University of Kent [Canterbury], Serv Ecosistemicosy Cambio Climat, Jardín Botánico de Medellín, Ctr Trop Conservat, Duke University [Durham], Instituto Nacional de Pesquisas da Amazônia (INPA), Instituto Nacional de Pesquisas Espaciais (INPE), Museo Hist Nat Noel Kempff Mercado, Universidad Autonoma Gabriel René Moreno, Wageningen University and Research Centre [Wageningen] (WUR), Programa Cienclas Agro & Mar, UNELLEZ Guanare, Herbario Universitario PORT, Biodiversiteit Ecosyst Dynam, University of Amsterdam [Amsterdam] (UvA), Ecologie des forêts de Guyane (UMR ECOFOG), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-AgroParisTech-Université de Guyane (UG)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Dept Biol Sci, Int Ctr Trop Bot, Florida International University (FIU), Universidade Federal do Acre (UFAC), Ecologie et Ecophysiologie Forestières [devient SILVA en 2018] (EEF), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), Tropenbos International (TBI), Embrapa Roraima, Universidad Nacional San Antonio Abad del Cusco, Coll Agr & Nat Resources, National Chung Hsing University, Evolution et Diversité Biologique (EDB), Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), Northeast Reg Inventory & Monitoring Program, National Park Service, Madre De Dios, Andes to Amazon Biodiversity Program, Federal University of Para - Universidade Federal do Para [Belem - Brésil], Universidade do Estado de Mato Grosso (UNEMAT), Dept Anthropol, University of Texas at Austin [Austin], Smithsonian Institution, Instituto de Investigaciones de la Amazonía Peruana, World Wildlife Fund (WWF), Ctr Trop Environm & Sustainabil Sci TESS, Sch Marine & Environm Sci, Cairns, Instituto Boliviano de Investigacion Forestal (IBIF), Manejo Forestal Tierras Trop Bolivia, Manejo Forestal de los Bosques Tropicales de Bolivia (FOMABO), Escuela Ciencias Forestales ESFOR, Universidad Mayor de San Simón, Universidad Estatal Amazonica, Universidad Autonoma del Beni, Forest Ecol & Forest Management Grp, Field Museum of Natural History [Chicago, USA], Universidad Nacioal de Amazonia Peruana, Inst Invest Desarrollo Forestal INDEFOR, Fac Cienclas Forestales & Ambientales, Universidad de los Andes [Bogota], Iwokrama International Centre for Rainforest Conservation and Development, Inst Ciencias Nat, Univ Nacl Colombia, Museu Paraense Emílio Goeldi, Universidade Federal Rural da Amazônia (UFRA), DG Joint Res Ctr, Inst Environm & Sustainabil, Commission of the European Communities, Naturalis Biodiversity Center, Ecol & Biodivers Grp, Utrecht University [Utrecht], Museo de Historia Natural Noel Kempff Mercado, School of Earth and Environmental Sciences [Australia], University of Wisconsin, Smithsonian Tropical Research Institute, Van der Hout Forestry Consulting, Univ Estadual, Missouri Botanical Garden, Wageningen University and Research [Wageningen] (WUR), Université des Antilles (UA)-Université de Guyane (UG)-Centre National de la Recherche Scientifique (CNRS)-AgroParisTech-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA), Florida International University [Miami] (FIU), Universidad Nacional de San Antonio Abad del Cusco (UNSAAC), Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, Instituto de Investigaciones de la Amazonía Peruana (IIAP), World Wide Fund (WWF), Universidad Mayor de San Simón [Cochabamba, Bolivie] (UMSS), Universidad de los Andes [Bogota] (UNIANDES), Museu Paraense Emílio Goeldi [Belém, Brésil] (MPEG), Naturalis Biodiversity Center [Leiden], Museo de Historia Natural Noel Kempff Mercado [Bolivie], and University of Wisconsin-Madison
Subjects: 0106 biological sciences, 010504 meteorology & atmospheric sciences, [SDV]Life Sciences [q-bio], forêt tropicale, Carbon sequestration, Atmospheric sciences, 01 natural sciences, Sink (geography), Trees, chemistry.chemical_compound, Tropical climate, Biomasse, Dynamique des populations, Biomass, Carbon dioxide in Earth's atmosphere, Multidisciplinary, geography.geographical_feature_category, Plant Stems, Amazon rainforest, Ecology, Carbon sink, food and beverages, Wood, séquestration du carbone, protection de la forêt, Carbon dioxide, Écosystème forestier, P01 - Conservation de la nature et ressources foncières, Brazil, Carbon Sequestration, Rainforest, P40 - Météorologie et climatologie, Mortalité, 010603 evolutionary biology, 0105 earth and related environmental sciences, Changement climatique, geography, Tropical Climate, Atmosphere, 15. Life on land, Carbon Dioxide, Longévité, Carbon, K10 - Production forestière, chemistry, 13. Climate action, Environmental science, Cycle du carbone
Abstract: Atmospheric carbon dioxide records indicate that the land surface has acted as a strong global carbon sink over recent decades1, 2, with a substantial fraction of this sink probably located in the tropics3, particularly in the Amazon4. Nevertheless, it is unclear how the terrestrial carbon sink will evolve as climate and atmospheric composition continue to change. Here we analyse the historical evolution of the biomass dynamics of the Amazon rainforest over three decades using a distributed network of 321 plots. While this analysis confirms that Amazon forests have acted as a long-term net biomass sink, we find a long-term decreasing trend of carbon accumulation. Rates of net increase in above-ground biomass declined by one-third during the past decade compared to the 1990s. This is a consequence of growth rate increases levelling off recently, while biomass mortality persistently increased throughout, leading to a shortening of carbon residence times. Potential drivers for the mortality increase include greater climate variability, and feedbacks of faster growth on mortality, resulting in shortened tree longevity5. The observed decline of the Amazon sink diverges markedly from the recent increase in terrestrial carbon uptake at the global scale1, 2, and is contrary to expectations based on models.
Published: 2015

33. New precursor of 3-mercaptohexan-1-ol in grape juice: thiol-forming potential and kinetics during early stages of must fermentation

Author: Michael Johannes Harsch, Jean-Michel Salmon, Richard C. Gardner, Benoit Colonna-Ceccaldi, Andy Frost, Frank Benkwitz, Sciences Pour l'Oenologie (SPO), Institut National de la Recherche Agronomique (INRA)-Université de Montpellier (UM)-Université Montpellier 1 (UM1)-Institut de Recherche pour le Développement (IRD [Nouvelle-Calédonie])-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Pernod Ricard, Sch Biol Sci, University of Bristol [Bristol], Pernod Ricard Centre de Recherche, Pernod Ricard New Zealand, Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université Montpellier 1 (UM1)-Université de Montpellier (UM)-Institut National de la Recherche Agronomique (INRA), Centre de recherche Pernod Ricard, and Université Montpellier 1 (UM1)-Institut de Recherche pour le Développement (IRD [Nouvelle-Calédonie])-Institut National de la Recherche Agronomique (INRA)-Université de Montpellier (UM)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)
Subjects: 0106 biological sciences, 3MH, AROMA, Hydrogen sulfide, [SDV]Life Sciences [q-bio], Wine, (E)-2-hexenal, Acetates, 01 natural sciences, SACCHAROMYCES-CEREVISIAE, PATHWAY, chemistry.chemical_compound, (E)-2-hexen-1-ol, Organic chemistry, Vitis, chemistry.chemical_classification, Fermentation in winemaking, biology, Sauvignon blanc, VITIS-VINIFERA L, grape, HYDROGEN-SULFIDE FORMATION, VOLATILE THIOLS, Taste, Thiol, GC-MS, General Agricultural and Biological Sciences, thiol precursor, GREEN, SULFUR, Saccharomyces cerevisiae, METABOLISM, Beverages, 3-mercaptohexan-1-ol, 010608 biotechnology, HS-SPME, C6, Sulfhydryl Compounds, Aroma, Aldehydes, 010401 analytical chemistry, Acetaldehyde, General Chemistry, biology.organism_classification, Yeast, 0104 chemical sciences, SAUVIGNON BLANC WINES, Kinetics, chemistry, Fruit, Fermentation, Odorants, Hexanols
Abstract: Two volatile thiols, 3-mercaptohexan-1-ol (3MH) and 3-mercaptohexyl acetate (3MHA), are key aroma impact compounds in many young white wines, especially of the variety Sauvignon blanc (SB). Although great effort has been invested to identify their precursors in recent years, the origin of the majority of 3MH and 3MHA generated during wine fermentation still cannot be explained. Here we demonstrate that supplying an external source of hydrogen sulfide to grape juice hugely increases its thiol-forming potential. We further describe the discovery of (E)-2-hexen-1-ol as an additional new thiol precursor and demonstrate that it possesses, together with (E)-2-hexenal, an immense thiol-forming potential during fermentation. Both C6-compounds are extremely rapidly metabolized by yeast during the first hours after inoculation, even under commercial conditions, and can be interconverted during this phase depending on their initial concentration in the grape juice. Spiking grape juice with additional acetaldehyde greatly enhanced the (E)-2-hexen-1-ol to (E)-2-hexenal conversion rate. Delaying the metabolization of the two unsaturated C6-thiol precursors by yeast, at the same time as increasing hydrogen sulfide production early in fermentation, opens up a great opportunity to tap into this enormous potential 3MH and 3MHA source in grape juice and extends the possibility of thiol production to other non-grape-based alcoholic beverages as well.
Published: 2013

34. A QCD description of the ATLAS jet veto measurement

Author: Christophe Royon, Catherine Marquet, Yoshitaka Hatta, Dominik Werder, Gregory Soyez, Takahiro Ueda, Service de Physique Théorique (SPhT), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Centre National de la Recherche Scientifique (CNRS), Centre d'Etudes Nucléaires de Bordeaux Gradignan (CENBG), Université Sciences et Technologies - Bordeaux 1 (UB)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), Institut de Recherches sur les lois Fondamentales de l'Univers (IRFU), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay, Institut de Physique Théorique - UMR CNRS 3681 (IPHT), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS), Dept Biol Sci, Lab Dev Cell Biol, The University of Tokyo (UTokyo), PRESTO, Japan Science and Technology Agency, LABEX, IDEOPTIMALJE, Université Sciences et Technologies - Bordeaux 1-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), and De Laborderie, Emmanuelle
Subjects: Nuclear and High Energy Physics, Particle physics, Physics::Instrumentation and Detectors, High Energy Physics::Lattice, Astrophysics::High Energy Astrophysical Phenomena, Veto, FOS: Physical sciences, 01 natural sciences, High Energy Physics - Phenomenology (hep-ph), 0103 physical sciences, Yield ratio, Rapidity, Resummation, 010306 general physics, ComputingMilieux_MISCELLANEOUS, Physics, Quantum chromodynamics, [PHYS]Physics [physics], 010308 nuclear & particles physics, Atlas (topology), High Energy Physics::Phenomenology, Gluon, [PHYS.HPHE] Physics [physics]/High Energy Physics - Phenomenology [hep-ph], High Energy Physics - Phenomenology, [PHYS.HPHE]Physics [physics]/High Energy Physics - Phenomenology [hep-ph], High Energy Physics::Experiment
Abstract: We present a new QCD description of the ATLAS jet veto measurement, using the Banfi-Marchesini-Smye equation to constrain the inter-jet QCD radiation. This equation resums emissions of soft gluons at large angles, at leading-logarithmic accuracy, and accounts for both the so-called Sudakov and non-global logarithms. We show that this approach is able to reproduce, with no fitting parameters, the fraction of high-pT forward/backward di-jet events which do not contain additional hard emissions in the inter-jet rapidity range. We also compute the gap fraction in fixed-order perturbation theory to O(alpha_s^2) and show that the perturbative series is unstable at large rapidity intervals., 10 pages, 5 figures
Published: 2013

35. Comparison of the Heterologous Expression of Trichoderma reesei Endoglucanase II and Cellobiohydrolase II in the Yeasts Pichia pastoris and Yarrowia lipolytica

Author: Nassapat Boonvitthya, Warawut Chulalaksananukul, Vorakan Burapatana, Michael J. O’Donohue, Sophie Bozonnet, Fac Sci, Biol Sci Program, Chulalongkorn University [Bangkok], Fac Sci, Dept Bot, Biofuels Biocatalysts Res Unit, Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées, Laboratoire d'Ingénierie des Systèmes Biologiques et des Procédés (LISBP), Centre National de la Recherche Scientifique (CNRS)-Institut National des Sciences Appliquées - Toulouse (INSA Toulouse), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Institut National de la Recherche Agronomique (INRA), PTT Res & Technol Inst, PTT Publ Co Ltd, Chulalongkorn University, PTT Public Company Limited, Institut National de la Recherche Agronomique (INRA)-Institut National des Sciences Appliquées - Toulouse (INSA Toulouse), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS), Université de Toulouse (UT), and Institut National des Sciences Appliquées (INSA)-Université de Toulouse (UT)-Institut National des Sciences Appliquées (INSA)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS)
Subjects: 0106 biological sciences, Yarrowia lipolytica, [SDV]Life Sciences [q-bio], Yarrowia, Expression, medicine.disease_cause, 01 natural sciences, Applied Microbiology and Biotechnology, Biochemistry, Pichia, law.invention, SACCHAROMYCES-CEREVISIAE, Pichia pastoris, law, Yeasts, Cloning, Molecular, Endoglucanase, Promoter Regions, Genetic, Trichoderma reesei, Trichoderma, 0303 health sciences, biology, Chemistry, Temperature, Hydrogen-Ion Concentration, Recombinant Proteins, ESCHERICHIA-COLI, Recombinant DNA, CELLULASE, Biotechnology, DOMAINS, Saccharomyces cerevisiae, Bioengineering, IMPROVEMENT, Cellulase, Microbiology, 03 medical and health sciences, 010608 biotechnology, Cellulose 1,4-beta-Cellobiosidase, medicine, RECOMBINANT PROTEIN EXPRESSION, Molecular Biology, Escherichia coli, 030304 developmental biology, EFFICIENT SECRETION, STABILITY, GLYCOSYLATION, biology.organism_classification, GENE, biology.protein, Cellobiohydrolase, Heterologous expression
Abstract: The sequences encoding the genes for endoglucanase II and cellobiohydrolase II from the fungus Trichoderma reesei QM9414 were successfully cloned and expressed in Yarrowia lipolytica under the control of the POX2 or TEF promoters, and using either the native or preproLip2 secretion signals. The expression level of both recombinant enzymes was compared with that obtained using Pichia pastoris, under the control of the AOX1 promoter to evaluate the utility of Y. lipolytica as a host strain for recombinant EGII and CBHII production. Extracellular endoglucanase activity was similar between TEF-preoproLip2-eglII expressed in Y. lipolytica and P. pastoris induced by 0.5 % (v/v) methanol, but when recombinant protein expression in P. pastoris was induced with 3 % (v/v) methanol, the activity was increased by about sevenfold. In contrast, the expression level of cellobiohydrolase from the TEF-preproLip2-cbhII cassette was higher in Y. lipolytica than in P. pastoris. Transformed Y. lipolytica produced up to 15 mg/l endoglucanase and 50 mg/l cellobiohydrolase, with the specific activity of both proteins being greater than their homologs produced by P. pastoris. Partial characterization of recombinant endoglucanase II and cellobiohydrolase II expressed in both yeasts revealed their optimum pH and temperature, and their pH and temperature stabilities were identical and hyperglycosylation had little effect on their enzymatic activity and properties.
Published: 2013

36. Mitochondrial DNA diversity of modern, ancient and wild sheep(Ovis gmelinii anatolica) from Turkey: new insights on the evolutionary history of sheep

Author: Sevgin Demirci, Atilla Engin, Eren Yüncü, İnci Togan, Füsun Özer, Evangelia Pişkin, Evren Koban Baştanlar, Sukru Anil Dogan, Nihan Dilşad Dağtaş, [Demirci, Sevgin -- Dagtas, Nihan Dilsad -- Ozer, Fusun -- Yuncu, Eren -- Dogan, Sukru Anil -- Togan, Inci] Middle E Tech Univ, Dept Biol Sci, TR-06531 Ankara, Turkey -- [Bastanlar, Evren Koban] TUBITAK Marmara Res Ctr, Genet Engn & Biotechnol Inst, Kocaeli, Turkey -- [Piskin, Evangelia] Middle E Tech Univ, Dept Settlement Archaeol, TR-06531 Ankara, Turkey -- [Engin, Atilla] Cumhuriyet Univ, Dept Archaeol, Sivas, Turkey, Dogan, Sukru Anil -- 0000-0002-1800-2923, and KOBAN BASTANLAR, Evren -- 0000-0002-6296-9728
Subjects: 0106 biological sciences, Male, Mitochondrial DNA, Turkey, Zoology, lcsh:Medicine, Biology, 010603 evolutionary biology, 01 natural sciences, DNA, Mitochondrial, Haplogroup, 03 medical and health sciences, Phylogenetics, Animals, Humans, lcsh:Science, Ovis, Phylogeny, Sheep, Domestic, 030304 developmental biology, Genetics, mtDNA control region, 0303 health sciences, Multidisciplinary, Polymorphism, Genetic, Sheep, Cytochrome b, Haplotype, lcsh:R, Cytochromes b, biology.organism_classification, Biological Evolution, Mitochondria, Phylogeography, Haplotypes, Multigene Family, Female, lcsh:Q, Research Article
Abstract: WOS: 000328730300062, PubMed ID: 24349158, In the present study, to contribute to the understanding of the evolutionary history of sheep, the mitochondrial (mt) DNA polymorphisms occurring in modern Turkish native domestic (n = 628), modern wild (Ovis gmelinii anatolica) (n = 30) and ancient domestic sheep from Oylum Hoyuk in Kilis (n = 33) were examined comparatively with the accumulated data in the literature. The lengths (75 bp/76 bp) of the second and subsequent repeat units of the mtDNA control region (CR) sequences differentiated the five haplogroups (HPGs) observed in the domestic sheep into two genetic clusters as was already implied by other mtDNA markers: the first cluster being composed of HPGs A, B, D and the second cluster harboring HPGs C, E. To manifest genetic relatedness between wild Ovis gmelinii and domestic sheep haplogroups, their partial cytochrome B sequences were examined together on a median-joining network. The two parallel but wider aforementioned clusters were observed also on the network of Ovis gmelenii individuals, within which domestic haplogroups were embedded. The Ovis gmelinii wilds of the present day appeared to be distributed on two partially overlapping geographic areas parallel to the genetic clusters that they belong to (the first cluster being in the western part of the overall distribution). Thus, the analyses suggested that the domestic sheep may be the products of two maternally distinct ancestral Ovis gmelinii populations. Furthermore, Ovis gmelinii anatolica individuals exhibited a haplotype of HPG A (n = 22) and another haplotype (n = 8) from the second cluster which was not observed among the modern domestic sheep. HPG E, with the newly observed members (n = 11), showed signs of expansion. Studies of ancient and modern mtDNA suggest that HPG C frequency increased in the Southeast Anatolia from 6% to 22% some time after the beginning of the Hellenistic period, 500 years Before Common Era (BCE)., Turkish Scientific Council (TUBITAK) [106G115, 111T464], This study has been supported by Turkish Scientific Council (TUBITAK, grant no: 106G115 and 111T464). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
Published: 2013

37. Developmental Priming of Stomatal Sensitivity to Abscisic Acid by Leaf Microclimate

Author: Jeanne Renaud, François Barbier, Florent Pantin, Deirdre H. McLachlan, Bertrand Muller, Alain Vavasseur, Didier Le Thiec, Stuart A. Casson, Thierry Simonneau, Alistair M. Hetherington, Christophe Rose, Thierry Bariac, Écophysiologie des Plantes sous Stress environnementaux (LEPSE), Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut méditerranéen de biodiversité et d'écologie marine et continentale (IMBE), Centre National de la Recherche Scientifique (CNRS)-Institut de recherche pour le développement [IRD] : UMR237-Aix Marseille Université (AMU)-Avignon Université (AU), Ecologie et Ecophysiologie Forestières [devient SILVA en 2018] (EEF), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), Biogéochimie et écologie des milieux continentaux (Bioemco), Centre National de la Recherche Scientifique (CNRS)-AgroParisTech-Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut National de la Recherche Agronomique (INRA)-École normale supérieure - Paris (ENS Paris), Sch Biol Sci, University of Bristol [Bristol], French Ministry of Research, French National Research Agency [ANR-2010-BLAN-1713], Biotechnology and Biological Sciences Research Council UK, Avignon Université (AU)-Aix Marseille Université (AMU)-Institut de recherche pour le développement [IRD] : UMR237-Centre National de la Recherche Scientifique (CNRS), École normale supérieure - Paris (ENS-PSL), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Institut de Recherche pour le Développement (IRD)-Institut National de la Recherche Agronomique (INRA)-Université Pierre et Marie Curie - Paris 6 (UPMC)-AgroParisTech-Centre National de la Recherche Scientifique (CNRS), ANR-10-BLAN-1713,NAXTRESS,Rôle des transporteurs d'excrétion de nitrate NAXT dans le contrôle de l'ouverture stomatique et la tolérance des plantes à la salinité et la sècheresse.(2010), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), École normale supérieure - Paris (ENS Paris), and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Institut National de la Recherche Agronomique (INRA)-Université Pierre et Marie Curie - Paris 6 (UPMC)-AgroParisTech-Centre National de la Recherche Scientifique (CNRS)
Subjects: 0106 biological sciences, [SDV]Life Sciences [q-bio], Arabidopsis, Microclimate, Priming (agriculture), METABOLISM, 01 natural sciences, General Biochemistry, Genetics and Molecular Biology, Rosette (botany), 03 medical and health sciences, chemistry.chemical_compound, AGE, Stress, Physiological, Botany, Desiccation, WATER-STRESS, Abscisic acid, 030304 developmental biology, Transpiration, ARABIDOPSIS LEAVES, 0303 health sciences, Agricultural and Biological Sciences(all), biology, CONDUCTANCE, Biochemistry, Genetics and Molecular Biology(all), XANTHIUM-STRUMARIUM, Water stress, fungi, Water, food and beverages, TRANSPIRATION, Plant Transpiration, biology.organism_classification, Plant Leaves, chemistry, ABA, Plant Stomata, ATMOSPHERIC RELATIVE-HUMIDITY, AIR HUMIDITY, General Agricultural and Biological Sciences, Abscisic Acid, 010606 plant biology & botany
Abstract: SummaryPlant water loss and CO2 uptake are controlled by valve-like structures on the leaf surface known as stomata. Stomatal aperture is regulated by hormonal and environmental signals. We show here that stomatal sensitivity to the drought hormone abscisic acid (ABA) is acquired during leaf development by exposure to an increasingly dryer atmosphere in the rosette plant Arabidopsis. Young leaves, which develop in the center of the rosette, do not close in response to ABA. As the leaves increase in size, they are naturally exposed to increasingly dry air as a consequence of the spatial arrangement of the leaves, and this triggers the acquisition of ABA sensitivity. Interestingly, stomatal ABA sensitivity in young leaves is rapidly restored upon water stress. These findings shed new light on how plant architecture and stomatal physiology have coevolved to optimize carbon gain against water loss in stressing environments.
Published: 2013

38. Strigolactones Stimulate Internode Elongation Independently of Gibberellins

Author: John Ross, Jean-Paul Pillot, Catherine Rameau, Yasmine Ligerot, Christine A. Beveridge, Alexandre de Saint Germain, Elizabeth A. Dun, Institut Jean-Pierre Bourgin (IJPB), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Sch Biol Sci, University of Queensland [Brisbane], Sch Plant Sci, Sandy Bay, University of Tasmania [Hobart, Australia] (UTAS), Ministere de l'Education Nationale, de la Recherche et de la Technologie, Australian Research Council, and University of Tasmania (UTAS)
Subjects: 0106 biological sciences, [SDV.SA]Life Sciences [q-bio]/Agricultural sciences, Cell division, Physiology, Mutant, Arabidopsis, Cell Count, Plant Science, ACTS DOWNSTREAM, 01 natural sciences, Plant Roots, Lactones, Hydroponics, Plant Proteins, 0303 health sciences, Plant Stems, integumentary system, food and beverages, Cell biology, Phenotype, BRANCHING SIGNALS, Gibberellin, PISUM-SATIVUM, Elongation, Plant Shoots, Meristem, Molecular Sequence Data, Strigolactone, Flowers, Biology, Models, Biological, Pisum, CELL-PROLIFERATION, 03 medical and health sciences, GREEN-REVOLUTION, BUD OUTGROWTH, Axillary bud, Botany, Genetics, DELLA PROTEINS, 030304 developmental biology, Cell Size, Cell growth, Peas, biology.organism_classification, Genes, Development, and Evolution, Gibberellins, ROOT DEVELOPMENT, PLANT-GROWTH, Mutation, Proteolysis, ARABIDOPSIS-THALIANA, 010606 plant biology & botany
Abstract: Strigolactone (SL) mutants in diverse species show reduced stature in addition to their extensive branching. Here, we show that this dwarfism in pea (Pisum sativum) is not attributable to the strong branching of the mutants. The continuous supply of the synthetic SL GR24 via the root system using hydroponics can restore internode length of the SL-deficient rms1 mutant but not of the SL-response rms4 mutant, indicating that SLs stimulate internode elongation via RMS4. Cytological analysis of internode epidermal cells indicates that SLs control cell number but not cell length, suggesting that SL may affect stem elongation by stimulating cell division. Consequently, SLs can repress (in axillary buds) or promote (in the stem) cell division in a tissue-dependent manner. Because gibberellins (GAs) increase internode length by affecting both cell division and cell length, we tested if SLs stimulate internode elongation by affecting GA metabolism or signaling. Genetic analyses using SL-deficient and GA-deficient or DELLA-deficient double mutants, together with molecular and physiological approaches, suggest that SLs act independently from GAs to stimulate internode elongation.
Published: 2013

39. The draft genome of watermelon (Citrullus lanatus) and resequencing of 20 diverse accessions

Author: Kathrin Klee, Wenju Hou, Yang Xia, Erli Pang, Florent Murat, Honghe Sun, Xiang Zhao, Jingan Liu, Yan Zhang, Ying Huang, Ruiqiang Li, Jianguo Zhang, Yunfu Li, Yi Ren, Haiying Zhang, Zequn Zheng, Tao Tan, Linyong Mao, Xiaohua Zou, Yimin Xu, Zhaoliang Zhang, Jiao Jiang, James J. Giovannoni, Qun Hu, Shaogui Guo, Juan Wang, Junyi Wang, Kui Lin, Xinming Liang, Aureliano Bombarely, Yong Xu, Dequan Liang, Mingyun Huang, Tian Lv, Kui Wu, Peixiang Ni, Bangqing Huang, Mingzhu Wu, Silin Zhong, Qinghe Kou, Ye Yin, Guoyi Gong, Miao Xing, Yi Zheng, Byung-Kook Ham, Zhonghua Zhang, Hanhui Kuang, Heiko Schoof, Xingping Zhang, Xiaosen Guo, Jérôme Salse, Hong Zhao, Hongju He, Hongping Yi, Amnon Levi, Xuesong Hu, Shanshan Dong, Zhiwen Wang, Zhangjun Fei, Jiumeng Min, Shan Gao, Lukas A. Mueller, Jun Wang, Bo Wang, Sanwen Huang, William J. Lucas, Natl Engn Res Ctr Vegetables, Key Lab Biol & Genet Improvement Hort Crops N Chi, Beijing Acad Agr & Forestry Sci, Boyce Thompson Inst Plant Res, Cornell University [New York], Beijing Genom Inst Shenzhen, T Life Res, Fudan University [Shanghai], Coll Plant Sci & Technol, China Agricultural University (CAU), Génétique Diversité et Ecophysiologie des Céréales (GDEC), Institut National de la Recherche Agronomique (INRA)-Université Blaise Pascal - Clermont-Ferrand 2 (UBP), Dept Plant Biol, Coll Biol Sci, University of California [Davis] (UC Davis), University of California-University of California, Inst Vegetables & Flowers, Chinese Academy of Agricultural Sciences (CAAS), Coll Life Sci, Beijing Normal University (BNU), Coll Hort & Forestry, Huazhong Agricultural University, Natl Engn Res Ctr Vegetables, Key Lab Biol & Genet Improvement Hort Crops N Chi, Beijing, Inst Nutzpflanzenwissensch & Ressource, Rheinische Friedrich-Wilhelms-Universität Bonn, Xinjiang Acad Agr Sci, Beijing Novogene Bioinformat Technol Co Ltd, Vegetable Lab, United States Department of Agriculture, Robert W Holley Ctr Agr & Hlth, Department of Biology [Copenhagen], Faculty of Science [Copenhagen], University of Copenhagen = Københavns Universitet (KU)-University of Copenhagen = Københavns Universitet (KU), Ministry of Science and Technology of the People's Republic of China [2010DFB33740, 2012AA020103, 2012AA100101, 2012AA100103, 2012AA100105], Ministry of Agriculture of the People's Republic of China [CARS-26], Major Program of Beijing Natural Science Foundation of China [5100001], Beijing Municipal Science and Technology Commission of China [D111100001311002], National Natural Science Foundation of China [30972015, 31171980, 31272184], Agence Nationale de la Recherche [ANR-09-JCJC-0058-01], USDA National Institute of Food and Agriculture [NIFA 201015479], US National Science Foundation [IOS-0923312, IOS-1025642], US-Israel Binational Agricultural Research and Development Fund [IS-4223-09C], USDA Agricultural Research Service, Boyce Thompson Institute [Ithaca], University of California (UC)-University of California (UC), Huazhong Agricultural University [Wuhan] (HZAU), University of Copenhagen = Københavns Universitet (UCPH)-University of Copenhagen = Københavns Universitet (UCPH), Cornell University, Beijing Normal University, and Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de la Recherche Agronomique (INRA)
Subjects: 0106 biological sciences, Germplasm, EXPRESSION, Citrullus lanatus, [SDV]Life Sciences [q-bio], Genomics, Subspecies, 01 natural sciences, Genome, 03 medical and health sciences, Genetic variation, Botany, Genetics, RNA-SEQ, PLANT, Citrullus, 030304 developmental biology, 2. Zero hunger, 0303 health sciences, Genetic diversity, biology, IDENTIFICATION, FRUIT, MADS-BOX GENE, respiratory system, biology.organism_classification, DNA-SEQUENCES, EVOLUTION, DISTANCE, TOMATO, human activities, 010606 plant biology & botany
Abstract: Watermelon, Citrullus lanatus, is an important cucurbit crop grown throughout the world. Here we report a high-quality draft genome sequence of the east Asia watermelon cultivar 97103 (2n = 2x = 22) containing 23,440 predicted protein-coding genes. Comparative genomics analysis provided an evolutionary scenario for the origin of the 11 watermelon chromosomes derived from a 7-chromosome paleohexaploid eudicot ancestor. Resequencing of 20 watermelon accessions representing three different C. lanatus subspecies produced numerous haplotypes and identified the extent of genetic diversity and population structure of watermelon germplasm. Genomic regions that were preferentially selected during domestication were identified. Many disease-resistance genes were also found to be lost during domestication. In addition, integrative genomic and transcriptomic analyses yielded important insights into aspects of phloem-based vascular signaling in common between watermelon and cucumber and identified genes crucial to valuable fruit-quality traits, including sugar accumulation and citrulline metabolism.
Published: 2013

40. Identification of [i]Pyrus[/i] single nucleotide polymorphisms (SNPs) and evaluation for genetic mapping in European pear and interspecific [i]Pyrus[/i] hybrids

Author: Paolo Fontana, Kyungho Won, Mickael Malnoy, Lester Brewer, Michela Troggio, Mareike Knäbel, Vincent G. M. Bus, Claudia Wiedow, Sara Montanari, Laure Perchepied, Charles-Eric Durel, David Chagné, Munazza Saeed, Robert J. Schaffer, Susan E. Gardiner, Ross N. Crowhurst, Yoon-Kyeong Kim, Riccardo Velasco, Institut de Recherche en Horticulture et Semences (IRHS), Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Palmerston North Res Ctr, Plant & Food Research, Ist Agr San Michele Adige, Res & Innovat Ctr, San Michele All Adige, Edmund Mach Foundation (FEM), Inst Food Nutr & Human Hlth, Sch Biol Sci, University of Auckland [Auckland], Natl Inst Hort & Herbal Sci, Pear Res Stn, Mt Albert Res Ctr, DSIR, Hawkes Bay Res Ctr, Motueka Res Ctr, FEM PhD school, Massey University Doctoral Scholarship, New Zealand Ministry of Science and Innovation grant 'Pipfruit: a juicy future' [27744], National Institute of Horticultural and Herbal Science grant, New Zealand Inst Plant & Food Res Ltd, and New Zealand Institute for Plant and Food Research Limited
Subjects: 0106 biological sciences, Genetic Markers, Malus, Genotyping Techniques, [SDV]Life Sciences [q-bio], Population, lcsh:Medicine, Single-nucleotide polymorphism, 01 natural sciences, Polymorphism, Single Nucleotide, Chromosomes, Plant, Pyrus, 03 medical and health sciences, Species Specificity, Chromosome Segregation, Selection, Genetic, education, lcsh:Science, Alleles, Crosses, Genetic, 030304 developmental biology, 2. Zero hunger, Genetics, 0303 health sciences, education.field_of_study, PEAR, Multidisciplinary, biology, Base Sequence, lcsh:R, Chromosome Mapping, biology.organism_classification, Pedigree, Europe, body regions, Settore AGR/07 - GENETICA AGRARIA, Genetic marker, Hybridization, Genetic, lcsh:Q, Genome, Plant, 010606 plant biology & botany, SNP array, Pyrus communis, Microsatellite Repeats, Research Article
Abstract: We have used new generation sequencing (NGS) technologies to identify single nucleotide polymorphism (SNP) markers from three European pear (Pyrus communis L.) cultivars and subsequently developed a subset of 1096 pear SNPs into high throughput markers by combining them with the set of 7692 apple SNPs on the IRSC apple Infinium (R) II 8K array. We then evaluated this apple and pear Infinium (R) II 9K SNP array for large-scale genotyping in pear across several species, using both pear and apple SNPs. The segregating populations employed for array validation included a segregating population of European pear ('Old Home' x 'Louise Bon Jersey') and four interspecific breeding families derived from Asian (P. pyrifolia Nakai and P. bretschneideri Rehd.) and European pear pedigrees. In total, we mapped 857 polymorphic pear markers to construct the first SNP-based genetic maps for pear, comprising 78% of the total pear SNPs included in the array. In addition, 1031 SNP markers derived from apple (13% of the total apple SNPs included in the array) were polymorphic and were mapped in one or more of the pear populations. These results are the first to demonstrate SNP transferability across the genera Malus and Pyrus. Our construction of high density SNP-based and gene-based genetic maps in pear represents an important step towards the identification of chromosomal regions associated with a range of horticultural characters, such as pest and disease resistance, orchard yield and fruit quality.
Published: 2013

41. Dynamics of Strigolactone Function and Shoot Branching Responses in Pisum sativum

Author: Alexandre de Saint Germain, Catherine Rameau, Christine A. Beveridge, Elizabeth A. Dun, Sch Biol Sci, Central Queensland University (CQU), Institut Jean-Pierre Bourgin (IJPB), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Australian Research Council, and Ministere de l'Education Nationale, de la Recherche et de la Technologie (MENRT)
Subjects: 0106 biological sciences, hormonal regulation, [SDV.SA]Life Sciences [q-bio]/Agricultural sciences, dormancy, F-BOX PROTEIN, Strigolactone, Endogeny, Plant Science, Biology, ACTS DOWNSTREAM, Genes, Plant, 01 natural sciences, FEEDBACK-REGULATION, Pisum, Lactones, 03 medical and health sciences, 4-Butyrolactone, BUD OUTGROWTH, Gene Expression Regulation, Plant, Axillary bud, AXILLARY BUDS, Botany, shoot branching, MUTATIONAL ANALYSIS, Transcription factor, Molecular Biology, Plant Proteins, 030304 developmental biology, Feedback, Physiological, Regulation of gene expression, 0303 health sciences, CYTOKININ BIOSYNTHESIS, Indoleacetic Acids, Peas, biology.organism_classification, Biosynthetic Pathways, Cell biology, Shoot, ARABIDOPSIS-THALIANA, Dormancy, AUXIN TRANSPORT, Plant Shoots, APICAL DOMINANCE, 010606 plant biology & botany
Abstract: Strigolactones (SLs), or their metabolites, were recently identified as endogenous inhibitors of shoot branching. However, certain key features and dynamics of SL action remained to be physiologically characterized. Here we show that successive direct application of SL to axillary buds at every node along the stem can fully inhibit branching. The SL inhibition of early outgrowth did not require inhibitory signals from other growing buds or the shoot tip. In addition to this very early or initial suppression of outgrowth, we also found SL to be effective, up to a point, at moderating the continuing growth of axillary branches. The effectiveness of SL at affecting bud and branch growth correlated with the ability of SL to regulate expression of PsBRC1. PsBRC1 is a transcription factor that is expressed strongly in axillary buds and is required for SL inhibition of shoot branching. Consistent with a dynamic role of the hormone, SL inhibition of bud growth did not prevent buds from later responding to a decapitation treatment, even though SL treatment immediately after decapitation inhibits the outgrowth response. Also, as expected from the hypothesized branching control network in plants, treatment of exogenous SL caused feedback down-regulation of SL biosynthesis genes within 2 h. Altogether, these results reveal new insights into the dynamics of SL function and support the premise that SLs or SL-derived metabolites function dynamically as a shoot branching hormone and that they act directly in axillary buds.
Published: 2013

42. A novel sensor to map auxin response and distribution at high spatio-temporal resolution

Author: Malcolm J. Bennett, Darren M. Wells, Jan Traas, Antoine Larrieu, Marina Oliva, Géraldine Brunoud, Teva Vernoux, Tom Beeckman, Amy H. Burrow, Stefan Kepinski, Vincent Mirabet, Reproduction et développement des plantes (RDP), Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de la Recherche Agronomique (INRA)-École normale supérieure - Lyon (ENS Lyon), University of Nottingham, UK (UON), Institut National de la Recherche Agronomique (INRA), Dept Plant Syst Biol, Universiteit Gent = Ghent University [Belgium] (UGENT), Fac Biol Sci, Ctr Plant Sci, Leeds LS2 9JT, University of Leeds, Human Frontier Science Program Organization [CDA 0047/2007 HFSPO], Agence National de la Recherche [ANR-07-JCJC-0115, EraSysBio+ iSAM], Biotechnology and Biological Sciences Research Council (BBSRC) [BB/F013981/1, BB/F007418/1], Engineering and Physical Sciences Research Council (EPSRC), École normale supérieure de Lyon (ENS de Lyon)-Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS), and Universiteit Gent = Ghent University (UGENT)
Subjects: 0106 biological sciences, Yellow fluorescent protein, Time Factors, [SDV]Life Sciences [q-bio], Arabidopsis, 01 natural sciences, Gene Expression Regulation, Plant, Arabidopsis thaliana, heterocyclic compounds, GENE-EXPRESSION, Regulation of gene expression, chemistry.chemical_classification, 0303 health sciences, Multidisciplinary, AUX/IAA PROTEINS, PLANT DEVELOPMENT, food and beverages, Plants, Genetically Modified, Cell biology, MERISTEM, Organ Specificity, GROWTH, Plant Shoots, Proteasome Endopeptidase Complex, Gravitropism, Repressor, Biology, BOX PROTEIN TIR1, 03 medical and health sciences, Bacterial Proteins, Auxin, Botany, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, ARABIDOPSIS ROOT, 030304 developmental biology, Indoleacetic Acids, RECEPTOR, fungi, Meristem, DEGRADATION, biology.organism_classification, TRANSPORT, Protein Structure, Tertiary, Luminescent Proteins, chemistry, biology.protein, sense organs, Developmental biology, 010606 plant biology & botany
Abstract: International audience; Auxin is a key plant morphogenetic signal(1) but tools to analyse dynamically its distribution and signalling during development are still limited. Auxin perception directly triggers the degradation of Aux/IAA repressor proteins(2-6). Here we describe a novel Aux/IAA-based auxin signalling sensor termed DII-VENUS that was engineered in the model plant Arabidopsis thaliana. The VENUS fast maturing form of yellow fluorescent protein(7) was fused in-frame to the Aux/IAA auxin-interaction domain (termed domain II; DII)(5) and expressed under a constitutive promoter. We initially show that DII-VENUS abundance is dependent on auxin, its TIR1/AFBs co-receptors(4-6,8) and proteasome activities. Next, we demonstrate that DII-VENUS provides a map of relative auxin distribution at cellular resolution in different tissues. DII-VENUS is also rapidly degraded in response to auxin and we used it to visualize dynamic changes in cellular auxin distribution successfully during two developmental responses, the root gravitropic response and lateral organ production at the shoot apex. Our results illustrate the value of developing response input sensors such as DII-VENUS to provide high-resolution spatio-temporal information about hormone distribution and response during plant growth and development.
Published: 2012

43. Biological control of bacterial wilt in Arabidopsis thaliana involves abscissic acid signalling

Author: Mathieu Hanemian, Dong Xin Feng, Céline Tasset, Jian Hu, Laurent Deslandes, Yves Marco, Dominique Tremousaygue, Xavier Barlet, Laboratoire des interactions plantes micro-organismes (LIPM), Institut National de la Recherche Agronomique (INRA)-Centre National de la Recherche Scientifique (CNRS), UMR 2594, Centre National de la Recherche Scientifique (CNRS), Chinese Academy of Agricultural Sciences (CAAS), Unité mixte de recherche interactions plantes-microorganismes, Institut National de la Recherche Agronomique (INRA)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), Coll Biol Sci, China Agricultural University (CAU), National Science Foundation of China [31071675, 30671179], French Ministry for Higher Education and Research CNRS, and Agence Nationale de la Recherche [PCS-08-GENO-SCRIPS]
Subjects: 0106 biological sciences, Arabidopsis thaliana, Physiology, [SDV]Life Sciences [q-bio], Mutant, Arabidopsis, defense signalling, Pseudomonas syringae, biological control, Plant Science, 01 natural sciences, PSEUDOMONAS-SOLANACEARUM, chemistry.chemical_compound, Gene Expression Regulation, Plant, SYSTEMIC ACQUIRED-RESISTANCE, Phosphoprotein Phosphatases, DISEASE RESISTANCE, 0303 health sciences, Ralstonia solanacearum, biology, Bacterial wilt, Jasmonic acid, food and beverages, RALSTONIA-SOLANACEARUM, hrp genes, abscissic acid (ABA), Host-Pathogen Interactions, INSENSITIVE MUTANTS, microarray, Signal Transduction, PHYTOALEXIN-DEFICIENT MUTANTS, Virulence, Microbiology, 03 medical and health sciences, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, TOMATO PLANTS, 030304 developmental biology, Plant Diseases, Arabidopsis Proteins, fungi, PLANT-PATHOGEN INTERACTIONS, TOBACCO-LEAVES, biochemical phenomena, metabolism, and nutrition, biology.organism_classification, SALICYLIC-ACID, chemistry, Bacteria, Salicylic acid, 010606 plant biology & botany, Abscisic Acid
Abstract: International audience; Means to control bacterial wilt caused by the phytopathogenic root bacteria Ralstonia solanacearum are limited. Mutants in a large cluster of genes (hrp) involved in the pathogenicity of R similar to solanacearum were successfully used in a previous study as endophytic biocontrol agents in challenge inoculation experiments on tomato. However, the molecular mechanisms controlling this resistance remained unknown. We developed a protection assay using Arabidopsis thaliana as a model plant and analyzed the events underlying the biological control by genetic, transcriptomic and molecular approaches. High protection rates associated with a significant decrease in the multiplication of R similar to solanacearum were observed in plants pre-inoculated with a similar to hrpB mutant strain. Neither salicylic acid, nor jasmonic acid/ethylene played a role in the establishment of this resistance. Microarray analysis showed that 26% of the up-regulated genes in protected plants are involved in the biosynthesis and signalling of abscissic acid (ABA). In addition 21% of these genes are constitutively expressed in the irregular xylem cellulose synthase mutants (irx), which present a high level of resistance to R similar to solanacearum. We propose that inoculation with the ?hrpB mutant strain generates a hostile environment for subsequent plant colonization by a virulent strain of R similar to solanacearum.
Published: 2012

44. Antagonistic Action of Strigolactone and Cytokinin in Bud Outgrowth Control

Author: Alexandre de Saint Germain, Christine A. Beveridge, Elizabeth A. Dun, Catherine Rameau, Sch Biol Sci, University of Queensland [Brisbane], Institut Jean-Pierre Bourgin (IJPB), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Australian Research Council, and French Academy of Agriculture
Subjects: 0106 biological sciences, [SDV.SA]Life Sciences [q-bio]/Agricultural sciences, Cytokinins, Physiology, Apical dominance, GROWTH SUBSTANCE, Mutant, Strigolactone, Plant Science, ACTS DOWNSTREAM, 01 natural sciences, APICAL-DOMINANCE, 03 medical and health sciences, chemistry.chemical_compound, Lactones, Plant Growth Regulators, Gene Expression Regulation, Plant, Xylem, Axillary bud, AXILLARY BUDS, Botany, Genetics, Arabidopsis thaliana, RICE, Transcription factor, 030304 developmental biology, Plant Proteins, GENE-EXPRESSION, 0303 health sciences, biology, Development and Hormone Action, fungi, Peas, PEA, food and beverages, biology.organism_classification, Cell biology, Up-Regulation, chemistry, MUTANT, Shoot, Cytokinin, Mutation, ARABIDOPSIS-THALIANA, AUXIN TRANSPORT, Plant Shoots, 010606 plant biology & botany, Transcription Factors
Abstract: Cytokinin (CK) has long been implicated as a promoter of bud outgrowth in plants, but exactly how this is achieved in coordination with other plant hormones is unclear. The recent discovery of strigolactones (SLs) as the long-sought branch-inhibiting hormone allowed us to test how CK and SL coordinately regulate bud outgrowth in pea (Pisum sativum). We found that SL-deficient plants are more sensitive to stimulation of bud growth by low concentrations of locally applied CK than wild-type plants. Furthermore, in contrast with SL mutant plants, buds of wild-type plants are almost completely resistant to stimulation by CK supplied to the vasculature. Regardless of whether the exogenous hormones were supplied locally or to the xylem stream, SL and CK acted antagonistically on bud outgrowth. These data suggest that SLs do not affect the delivery of CK to axillary buds and vice versa. Rather, these data combined with dose-response experiments suggest that SLs and CK can act directly in buds to control their outgrowth. These hormones may converge at a common point in the bud outgrowth regulatory pathway. The expression of pea BRANCHED1, a TCP transcription factor expressed strongly in buds and thought to act downstream of SLs in shoot branching, is regulated by CK and SL without a requirement for protein synthesis and in a manner that correlates with observed bud growth responses.
Published: 2012

45. Differential dynamics of transposable elements during long-term diploidization of Nicotiana section Repandae (Solanaceae) allopolyploid genomes

Author: K. Yoong Lim, Mark W. Chase, Corinne Mhiri, Marie-Angèle Grandbastien, James J. Clarkson, Andrew R. Leitch, Christian Parisod, Institut Jean-Pierre Bourgin (IJPB), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Sch Biol Sci, Queen Mary University of London (QMUL), Jodrell Laboratory, Royal Botanic Garden , Kew, project 'Effect of polyploidy on plant genome biodiversity and evolution', French Agence Nationale de la Recherche (ANR) [ANR-05-BDIV-015], UK Natural Environment Research Council, and Swiss National Science Foundation
Subjects: 0106 biological sciences, Evolutionary Genetics, Plant Evolution, SIZE EVOLUTION, Lineage (evolution), [SDV]Life Sciences [q-bio], lcsh:Medicine, Retrotransposon, Plant Science, 01 natural sciences, Genome, Ploidy, Molecular Cell Biology, lcsh:Science, Genome Evolution, Phylogeny, Genetics, 0303 health sciences, Multidisciplinary, FLOWERING PLANTS, ALLOTETRAPLOTOBACCO, food and beverages, Genomics, Biological Evolution, Retrotransposons, POLYPLOEVOLUTION, Transposons, Genome, Plant, Research Article, Transposable element, Genome evolution, Evolutionary Processes, GENETICS, Biology, SEQUENCE, MECHANISMS, 03 medical and health sciences, Polyploid, Phylogenetics, Tobacco, EVOLUTIONARY CONSEQUENCES, 030304 developmental biology, Analysis of Variance, Evolutionary Biology, Ploidies, Polymorphism, Genetic, PHYLOGENETIC NETWORKS, fungi, lcsh:R, Genomic Evolution, DNA, DNA Transposable Elements, Genetic Polymorphism, lcsh:Q, Population Genetics, 010606 plant biology & botany
Abstract: Evidence accumulated over the last decade has shown that allopolyploid genomes may undergo drastic reorganization. However, timing and mechanisms of structural diploidization over evolutionary timescales are still poorly known. As transposable elements (TEs) represent major and labile components of plant genomes, they likely play a pivotal role in fuelling genome changes leading to long-term diploidization. Here, we exploit the 4.5 MY old allopolyploid Nicotiana section Repandae to investigate the impact of TEs on the evolutionary dynamics of genomes. Sequence-specific amplified polymorphisms (SSAP) on seven TEs with expected contrasted dynamics were used to survey genome-wide TE insertion polymorphisms. Comparisons of TE insertions in the four allopolyploid species and descendents of the diploid species most closely related to their actual progenitors revealed that the polyploids showed considerable departure from predicted additivity of the diploids. Large numbers of new SSAP bands were observed in polyploids for two TEs, but restructuring for most TE families involved substantial loss of fragments relative to the genome of the diploid representing the paternal progenitor, which could be due to changes in allopolyploids, diploid progenitor lineages or both. The majority of non-additive bands were shared by all polyploid species, suggesting that significant restructuring occurred early after the allopolyploid event that gave rise to their common ancestor. Furthermore, several gains and losses of SSAP fragments were restricted to N. repanda, suggesting a unique evolutionary trajectory. This pattern of diploidization in TE genome fractions supports the hypothesis that TEs are central to long-term genome turnover and depends on both TE and the polyploid lineage considered.
Published: 2012

46. MRE11 and RAD50, but not NBS1, are essential for gene targeting in the moss Physcomitrella patens

Author: Marcela Holá, Karel J. Angelis, Nathalie Vrielynck, Jaroslav Kozak, Fabien Nogué, Florence Charlot, Andrew C. Cuming, Didier G. Schaefer, Yasuko Kamisugi, Fac Biol Sci, Ctr Plant Sci, Leeds LS2 9JT, University of Leeds, Institut Jean-Pierre Bourgin (IJPB), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Inst Expt Bot, Czech Academy of Sciences [Prague] (CAS), and Czech Academy of Sciences [Prague] (ASCR)
Subjects: 0106 biological sciences, DEFICIENT PLANTS, [SDV.SA]Life Sciences [q-bio]/Agricultural sciences, DNA Repair, DOUBLE-STRAND BREAKS, T-DNA INTEGRATION, HOMOLOGOUS RECOMBINATION, SACCHAROMYCES-CEREVISIAE, IONIZING-RADIATION, ARABIDOPSIS-THALIANA, ALTERNATIVE ENDINGS, VERTEBRATE CELLS, REPAIR PATHWAYS, DNA repair, DNA damage, Physcomitrella, Molecular Sequence Data, Gene Expression, Knockout moss, Genome Integrity, Repair and Replication, Physcomitrella patens, 01 natural sciences, Gene Knockout Techniques, 03 medical and health sciences, Genetics, DNA Breaks, Double-Stranded, Plant Proteins, 030304 developmental biology, 0303 health sciences, biology, Gene targeting, biology.organism_classification, Bryopsida, DNA-Binding Proteins, Phenotype, MRN complex, Rad50, Gene Targeting, Mutation, 010606 plant biology & botany
Abstract: The moss Physcomitrella patens is unique among plant models for the high frequency with which targeted transgene insertion occurs via homologous recombination. Transgene integration is believed to utilize existing machinery for the detection and repair of DNA double-strand breaks (DSBs). We undertook targeted knockout of the Physcomitrella genes encoding components of the principal sensor of DNA DSBs, the MRN complex. Loss of function of PpMRE11 or PpRAD50 strongly and specifically inhibited gene targeting, whilst rates of untargeted transgene integration were relatively unaffected. In contrast, disruption of the PpNBS1 gene retained the wild-type capacity to integrate transforming DNA efficiently at homologous loci. Analysis of the kinetics of DNA-DSB repair in wild-type and mutant plants by single-nucleus agarose gel electrophoresis revealed that bleomycin-induced fragmentation of genomic DNA was repaired at approximately equal rates in each genotype, although both the Ppmre11 and Pprad50 mutants exhibited severely restricted growth and development and enhanced sensitivity to UV-B and bleomycin-induced DNA damage, compared with wild-type and Ppnbs1 plants. This implies that while extensive DNA repair can occur in the absence of a functional MRN complex; this is unsupervised in nature and results in the accumulation of deleterious mutations incompatible with normal growth and development.
Published: 2012

47. Relationship between phosphorus status and nitrogen fixation by common beans (Phaseolus vulgaris L.) under drip irrigation

Author: E. M. Selim, Didier Blavet, Jean-Jacques Drevon, Hesham Aslan Attar, Magdi T. Abdelhamid, Soils & Water Use Dept, Agr & Biol Div, National Research Center, Ecologie fonctionnelle et biogéochimie des sols et des agro-écosystèmes (UMR Eco&Sols), Institut National de la Recherche Agronomique (INRA)-Institut de Recherche pour le Développement (IRD)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Dept Biol Sci, Rabigh Coll Sci & Art, King Abdulaziz University, Dept Bot, Agr & Biol Div, Egyptian government, IMHOTEP [EGY/FR4-004], Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), and Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Institut National de la Recherche Agronomique (INRA)
Subjects: 0106 biological sciences, Environmental Engineering, NODULATION, [SDV]Life Sciences [q-bio], chemistry.chemical_element, Drip irrigation, 01 natural sciences, Phaseolus vulgaris, chemistry.chemical_compound, Nitrogen fixation, Soil pH, USE EFFICIENCY, FERTILIZATION, Environmental Chemistry, SYMBIOTIC N-2 FIXATION, TOLERANCE, 2. Zero hunger, biology, Phosphorus, PEA-PLANTS, food and beverages, 04 agricultural and veterinary sciences, biology.organism_classification, Sandy soil, SOIL, P DEFICIENCY, VARIABILITY, Agronomy, chemistry, Recombinant inbred lines, 040103 agronomy & agriculture, 0401 agriculture, forestry, and fisheries, PISUM-SATIVUM, Soil fertility, Phosphorus utilization, Phaseolus, General Agricultural and Biological Sciences, Phosphorus pentoxide, 010606 plant biology & botany
Abstract: Publication Inra prise en compte dans l'analyse bibliométrique des publications scientifiques mondiales sur les Fruits, les Légumes et la Pomme de terre. Période 2000-2012. http://prodinra.inra.fr/record/256699; The current study aims to examine, the response of contrasted recombinant inbred lines of common bean to the application of phosphorus, to identify the bean recombinant inbred lines which were efficient in phosphorus utilization when dependent on nitrogen fixation as a source of nitrogen. The experiment was conducted at the experimental farm of Agricultural Research Station of the Nubaria district, Behera, Egypt, during the winter seasons of 2008-2009. Three levels of mineral phosphorus fertilizers were applied (0, 45 and 90 kg ha(-1) phosphorus pentoxide). Nodulation, plant growth parameters, leaf area, soil Olsen phosphorus, pH, and phosphorus and nitrogen of shoots, nodules and seeds were measured. The results have shown that the recombinant inbred lines responded positively to P application levels. The best values were observed in recombinant inbred lines 75, 83 and 34. Vegetative growth parameters were significantly enhanced by increasing levels of phosphorus. The highest level of phosphorus, i.e., 90 kg ha(-1) phosphorus pentoxide gave the optimal values of growth parameters for all common bean recombinant inbred lines while control plants obtained the lowest values. An increase of Olsen-P and a decrease of soil pH were also observed with increases in phosphorus. These results led to the conclusions that phosphorus applied to Nubaria soil: (1) improved the soil fertility; (2) enhanced the ability of root nodules of common bean recombinant inbred lines to fix atmospheric nitrogen; and (3) increased the release of hydrogen by roots, thus decreasing soil pH and reducing the immobilization of phosphorus in the soil solution and transforming it into available form for the plant.
Published: 2012

48. Genome-level identification of cell wall invertase genes in wheat for the study of drought tolerance

Author: Hollie Webster, Gabriel Keeble, Bernard Dell, John Fosu-Nyarko, Y. Mukai, Paula Moolhuijzen, Matthew Bellgard, Jizeng Jia, Xiuying Kong, Catherine Feuillet, Frédéric Choulet, null International Wheat Genome Sequencing Consortium, Rudi Appels, Sch Biol Sci & Biotechnol, Murdoch University, Ctr Comparat Genom, State Agr Biotechnol Ctr, Div Nat Sci, Plant Mol Genet Lab, Osaka Kyoiku University, Key Lab Crop Gene Resources & Germplasm Enhanceme, Natl Key Facil Crop Gene Resources & Genet Improv, Minist Agr, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Génétique Diversité et Ecophysiologie des Céréales (GDEC), Institut National de la Recherche Agronomique (INRA)-Université Blaise Pascal - Clermont-Ferrand 2 (UBP), Key Laboratory for Crop Genetic Resources and Germplasm Enhancement [Beijing] (ICS CAAS), Institute of Crop Sciences of CAAS [Beijing] (ICS CAAS), Chinese Academy of Agricultural Sciences (CAAS)-Chinese Academy of Agricultural Sciences (CAAS), and Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de la Recherche Agronomique (INRA)
Subjects: 0106 biological sciences, Gene isoform, EXPRESSION, [SDV.SA]Life Sciences [q-bio]/Agricultural sciences, Candidate gene, STRESS, Genomics, Plant Science, MALE-STERILITY, SUGAR, METABOLISM, 01 natural sciences, Genome, 03 medical and health sciences, water stress, Aegilops tauschii, Gene family, Gene, SUCROSE, 030304 developmental biology, 2. Zero hunger, Genetics, Regulation of gene expression, 0303 health sciences, PLANT INVERTASES, biology, grain yield, pollen sterility, food and beverages, sequencing, biology.organism_classification, YIELD, gene family, DURUM-WHEAT, Agronomy and Crop Science, HEXAPLOWHEAT, sucrose supply, 010606 plant biology & botany
Abstract: In wheat (Triticum aestivum L.) drought-induced pollen sterility is a major contributor to grain yield loss and is caused by the downregulation of the cell wall invertase gene IVR1. The IVR1 gene catalyses the irreversible hydrolysis of sucrose to glucose and fructose, the essential energy substrates which support pollen development. Downregulation of IVR1 in response to drought is isoform specific and shows variation in temporal and tissue-specific expression. IVR1 is now prompting interest as a candidate gene for molecular marker development to screen wheat germplasm for improved drought tolerance. The aim of this study was to define the family of IVR1 genes to enable: (1) individual isoforms to be assayed in gene expression studies; and (2) greater accuracy in IVR1 mapping to the wheat genetic map and drought tolerance QTL analysis. Using a cell wall invertase-specific motif as a probe, wheat genomics platforms were screened for the presence of unidentified IVR1 isoforms. Wheat genomics platforms screened included the IWGSC wheat survey sequence, the wheat D genome donor sequence from Aegilops tauschii Coss, and the CCG wheat chromosome 3B assembly: contig506. Chromosome-specific sequences homologous to the query motif were isolated and characterised. Sequence annotation results showed five previously unidentified IVR1 isoforms exist on multiple chromosome arms and on all three genomes (A, B and D): IVR1–3A, IVR1–4A, IVR1–5B, IVR1.2–3B and IVR1-5D. Including three previously characterised IVR1 isoforms (IVR1.1–1A, IVR1.2–1A and IVR1.1–3B), the total number of isoform gene family members is eight. The IVR1 isoforms contain two motifs common to cell wall invertase (NDPN and WECPDF) and a high degree of conservation in exon 4, suggesting conservation of functionality. Sequence divergence at a primary structure level in other regions of the gene was evident amongst the isoforms, which likely contributes to variation in gene regulation and expression in response to water deficit within this subfamily of IVR1 isoforms in wheat.
Published: 2012

49. Is genotypic variation of H+ efflux under P deficiency linked with nodulated-root respiration of N-2 - Fixing common-bean (Phaseolus vulgaris L.)?

Author: Jean-Jacques Drevon, Nora Alkama, Ghania Ounane, Ecologie fonctionnelle et biogéochimie des sols et des agro-écosystèmes (UMR Eco&Sols), Institut National de la Recherche Agronomique (INRA)-Institut de Recherche pour le Développement (IRD)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Dept Phytotech, Ecole Natl Super Agron, Fac Sci Biol & Sci Agron, Dept Agron, University of Tizi-Ouzou, Averroes fellowship, EU INCOMED, Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), and Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Institut National de la Recherche Agronomique (INRA)
Subjects: 0106 biological sciences, PHOSPHORUS DEFICIENCY, Physiology, [SDV]Life Sciences [q-bio], chemistry.chemical_element, Plant Science, Biology, 01 natural sciences, H+ efflux, Phaseolus vulgaris, OXYGEN, NODULES, Inbred strain, Nitrogen fixation, Nodule respiration, Botany, USE EFFICIENCY, Phosphorus deficiency, PERMEABILITY, 2. Zero hunger, Rhizosphere, Inoculation, Phosphorus, food and beverages, RHIZOSPHERE, 04 agricultural and veterinary sciences, 15. Life on land, biology.organism_classification, SYMBIOTIC NITROGEN-FIXATION, LEGUMES, VARIABILITY, chemistry, Shoot, 040103 agronomy & agriculture, 0401 agriculture, forestry, and fisheries, Phaseolus, Agronomy and Crop Science, PROTON RELEASE, 010606 plant biology & botany
Abstract: Publication Inra prise en compte dans l'analyse bibliométrique des publications scientifiques mondiales sur les Fruits, les Légumes et la Pomme de terre. Période 2000-2012. http://prodinra.inra.fr/record/256699; To examine genotypic variation of common bean in growth, phosphorus uptake, nodulated-root proton release, and nodule gas permeability, seven common bean recombinant inbred lines (RIL) from the cross of BAT477 x DOR364 were inoculated by Rhizobium tropici CIAT 899 and grown in hydroaeroponic culture under glasshouse conditions. A positive correlation was observed between shoot and nodule biomass for most of the studied RILs. Under P deficiency, the tolerant common bean RILs acidified more of their rhizosphere than the sensitive ones. The proton release of the RILs 147, 124, 104, 75 and RIL34 was positively correlated with nodule O-2 permeability. We conclude that nodulated common bean plants release a substantial amount of Er into the rhizosphere that is linked to the symbiotic N-2 fixation. It depends upon the nodule permeability to O-2 diffusion, and varies with genotype. (C) 2012 Elsevier GmbH. All rights reserved.
Published: 2012

50. QTL and candidate gene mapping for polyphenolic composition in apple fruit

Author: Rebecca A Henry, Andrew C. Allan, Michela Troggio, Susan E. Gardiner, Christelle M. Andre, Jenny Fraser, William A. Laing, Tony K. McGhie, Maysoon Rassam, David Chagné, Célia Krieger, Massimo Pindo, Michael B. Sullivan, Plant & Food Research, Laboratoire Agronomie et Environnement (LAE), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), Mt Albert Res Ctr, DSIR, University of Otago [Dunedin, Nouvelle-Zélande], Centro Ricerca e Innovazione, Fondazione Edmund Mach, Instituto Agrario S. Michele all' Adige, Sch Biol Sci, University of Auckland [Auckland], Pipfruit Internal Investment Programme (PIIP), and New Zealand Institute for Plant & Food Research Limited
Subjects: 0106 biological sciences, QTL mapping, [SDV]Life Sciences [q-bio], NEW-ZEALAND, RAPD MARKERS, Malus x domestica, Plant Science, 01 natural sciences, Antioxidants, anthocyanin, tannin, chemistry.chemical_compound, Flavonols, lcsh:Botany, ANTIOXIDANT, Food science, TRANSCRIPTION FACTOR, 2. Zero hunger, chemistry.chemical_classification, 0303 health sciences, education.field_of_study, Phenylpropanoid, biology, polyphenolic, candidate gene, flavonoid, flavanol, metabolomics, MALUS X DOMESTICA, CHLOROGENIC ACID, LINKAGE MAPS, RED APPLES, IDENTIFICATION, BIOSYNTHESIS, Chromosome Mapping, Leucoanthocyanidin reductase, food and beverages, Marker-assisted selection, lcsh:QK1-989, Settore AGR/07 - GENETICA AGRARIA, Phenotype, Malus, [SDE]Environmental Sciences, Flavonol, Genome, Plant, Research Article, DNA, Plant, Quantitative Trait Loci, Population, Quantitative trait locus, Polymorphism, Single Nucleotide, 03 medical and health sciences, Botany, education, 030304 developmental biology, Polyphenols, biology.organism_classification, chemistry, Fruit, Anthocyanin, 010606 plant biology & botany
Abstract: Publication Inra prise en compte dans l'analyse bibliométrique des publications scientifiques mondiales sur les Fruits, les Légumes et la Pomme de terre. Période 2000-2012. http://prodinra.inra.fr/record/256699; Background: The polyphenolic products of the phenylpropanoid pathway, including proanthocyanidins, anthocyanins and flavonols, possess antioxidant properties that may provide health benefits. To investigate the genetic architecture of control of their biosynthesis in apple fruit, various polyphenolic compounds were quantified in progeny from a 'Royal Gala'x 'Braeburn' apple population segregating for antioxidant content, using ultra high performance liquid chromatography of extracts derived from fruit cortex and skin. Results: Construction of genetic maps for 'Royal Gala' and 'Braeburn' enabled detection of 79 quantitative trait loci (QTL) for content of 17 fruit polyphenolic compounds. Seven QTL clusters were stable across two years of harvest and included QTLs for content of flavanols, flavonols, anthocyanins and hydroxycinnamic acids. Alignment of the parental genetic maps with the apple whole genome sequence in silico enabled screening for co-segregation with the QTLs of a range of candidate genes coding for enzymes in the polyphenolic biosynthetic pathway. This co-location was confirmed by genetic mapping of markers derived from the gene sequences. Leucoanthocyanidin reductase (LAR1) co-located with a QTL cluster for the fruit flavanols catechin, epicatechin, procyanidin dimer and five unknown procyanidin oligomers identified near the top of linkage group (LG) 16, while hydroxy cinnamate/quinate transferase (HCT/HQT) co-located with a QTL for chlorogenic acid concentration mapping near the bottom of LG 17. Conclusion: We conclude that LAR1 and HCT/HQT are likely to influence the concentration of these compounds in apple fruit and provide useful allele-specific markers for marker assisted selection of trees bearing fruit with healthy attributes.
Published: 2012

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